//chassis/prokaryote/bsubtilis
type: Collection
persistent identity: chassis prokaryote bsubtilis
display id: chassis_prokaryote_bsubtilis
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
owned by: james
owned by: myers
member: Fur box
member: BBa_J179000
member: RBS-GsiB
member: BBa_K1930003
member: BBa_K1228010
member: BBa_K1074006
member: mRFP1
member: BBa_K541505
member: SacB-HE
member: BBa_K1197004
member: pyrD 3 IS
member: GFP
member: BBa_K1351003
member: BBa_K143069
member: BBa_K1937001
member: R37
member: xyl+efe
member: BBa_K1351033
member: BBa_K143099
member: BBa_K302000
member: Pxyl-spoVG
member: pSBBs4S
member: pSac-Cm_BB
member: Pxyl
member: BBa_K1364011
member: Sporovecto
member: BBa_K143074
member: BBa_K1351032
member: amyE 3 IS
member: BBa_K302012
member: Switch
member: P43-gsiB
member: BBa_K302006
member: BBa_K1351039
member: BBa_K143080
member: EpsE
member: BBa_K1351027
member: BBa_K302007
member: BBa_K143075
member: pSBBs1C
member: BBa_I746666
member: Ph-s
member: BBa_K174001
member: BBa_K1185001
member: BBa_K174002
member: BBa_K302011
member: BBa_K294055
member: BBa_K1197003
member: BBa_K1085050
member: beta-galac
member: BBa_K1351028
member: BBa_K104006
member: XylR-T
member: BBa_K1351002
member: Pspac-hy
member: GFP_His
member: BBa_K1452000
member: BBa_K1351021
member: Pxyl-gsiB
member: BBa_K1399005
member: pTG262-BB
member: BBa_K090502
member: BBa_K143073
member: BBa_K1351004
member: BBa_K1351034
member: B. S. Vect
member: BBa_K1085016
member: BBa_K1085003
member: BBa_K104004
member: PtasA
member: BBa_K1399003
member: BBa_K1085029

Pveg-spoVG
type: ComponentDefinition
persistent identity: BBa K143053
display id: BBa_K143053
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter Pveg and RBS spoVG for B. subtilis
creator: Chris Hirst
created: 2008-10-07T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: true
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Constitutive promoter veg( BBa_K143012 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. Pveg-spoVG can be used in the context of a '''Ribosomes per second''' (RiPS) output generator '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of Pveg was obtained from the DBTBS1 and RBS-spoVG were obtained from papers2 and the sequence synthesised by GeneArt
mutable provenance: Pveg-spoVG was synthesised by GeneArt
owned by: james
owned by: myers
star: true
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143012
component: BBa_K143021
sequence annotation: BBa_K143012
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K143053_sequence/1

BBa_K143012
type: Component
persistent identity: component1979395
display id: component1979395
version: 1
top level: Pveg-spoVG
access: public
definition: Pveg

BBa_K143021
type: Component
persistent identity: component1979397
display id: component1979397
version: 1
top level: Pveg-spoVG
access: public
definition: RBS-spoVG

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1979395
display id: annotation1979395
version: 1
top level: Pveg-spoVG
location: https://synbiohub.org/public/igem/BBa_K143053/annotation1979395/range1979395/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143053/annotation1979395/range1979395/1
type: Range
persistent identity: range1979395
display id: range1979395
version: 1
direction: direction/reverse
top level: Pveg-spoVG
start: 1
end: 97
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1979397
display id: annotation1979397
version: 1
top level: Pveg-spoVG
location: https://synbiohub.org/public/igem/BBa_K143053/annotation1979397/range1979397/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143053/annotation1979397/range1979397/1
type: Range
persistent identity: range1979397
display id: range1979397
version: 1
direction: direction/reverse
top level: Pveg-spoVG
start: 106
end: 117
orientation: inline

BBa_K823001
type: ComponentDefinition
persistent identity: BBa K823001
display id: BBa_K823001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PliaI promoter of Bacillus subtilis
creator: Korinna Kraft
created: 2012-07-15T11:00:00Z
modified: 2015-05-08T01:13:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12081
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: PliaI is the promoter of the PliaI gene of Bacillus subtilis, which is inducible by bacitracin. It does not contain a ribosome binding site.
mutable notes: no considerations
mutable provenance: Bacillus subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: +1
sequence annotation: liaR-binding
sequence annotation: PliaI
sequence annotation: -35
sequence annotation: -10
sequence: https://synbiohub.org/public/igem/BBa_K823001_sequence/1

+1
type: SequenceAnnotation
persistent identity: annotation2202718
display id: annotation2202718
version: 1
top level: BBa_K823001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823001/annotation2202718/range2202718/1

https://synbiohub.org/public/igem/BBa_K823001/annotation2202718/range2202718/1
type: Range
persistent identity: range2202718
display id: range2202718
version: 1
direction: direction/forward
top level: BBa_K823001
start: 197
end: 197
orientation: inline

liaR-binding
type: SequenceAnnotation
persistent identity: annotation2202717
display id: annotation2202717
version: 1
top level: BBa_K823001
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K823001/annotation2202717/range2202717/1

https://synbiohub.org/public/igem/BBa_K823001/annotation2202717/range2202717/1
type: Range
persistent identity: range2202717
display id: range2202717
version: 1
direction: direction/forward
top level: BBa_K823001
start: 125
end: 159
orientation: inline

PliaI
type: SequenceAnnotation
persistent identity: annotation2202715
display id: annotation2202715
version: 1
top level: BBa_K823001
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823001/annotation2202715/range2202715/1

https://synbiohub.org/public/igem/BBa_K823001/annotation2202715/range2202715/1
type: Range
persistent identity: range2202715
display id: range2202715
version: 1
direction: direction/forward
top level: BBa_K823001
start: 1
end: 209
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2202721
display id: annotation2202721
version: 1
top level: BBa_K823001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823001/annotation2202721/range2202721/1

https://synbiohub.org/public/igem/BBa_K823001/annotation2202721/range2202721/1
type: Range
persistent identity: range2202721
display id: range2202721
version: 1
direction: direction/forward
top level: BBa_K823001
start: 160
end: 165
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2202720
display id: annotation2202720
version: 1
top level: BBa_K823001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823001/annotation2202720/range2202720/1

https://synbiohub.org/public/igem/BBa_K823001/annotation2202720/range2202720/1
type: Range
persistent identity: range2202720
display id: range2202720
version: 1
direction: direction/forward
top level: BBa_K823001
start: 185
end: 190
orientation: inline

BBa_K2057002
type: ComponentDefinition
persistent identity: BBa K2057002
display id: BBa_K2057002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Alginate lyase from Bacillus thuringiensis
creator: Jos?? Eleazar Barboza Corona
created: 2016-10-16T11:00:00Z
modified: 2016-10-17T08:05:37Z
discontinued: false
dominant: false
experience: experience/None
group u list: _2525_
m user id: 30590
owner id: 30590
owning group id: 9
status: status/Planning
bookmark: false
mutable description: Alginate lyases destroy the alginate, which is the main component of biofilm in many bacteria, including that produced by Pseudomonas aeruginosa.
mutable notes: As it has never reported the cloning of algynate lyase gene in B. thuringiensis we need to designed the primers using the genome of Bacillus thuringiensis.
mutable provenance: We amplified from the genome of Bacillus thuringiensis 4Q7
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316

GAFP-1
type: ComponentDefinition
persistent identity: BBa K1364002
display id: BBa_K1364002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS - Antifungal GAFP-1
creator: Manon Molina
created: 2014-09-30T11:00:00Z
modified: 2015-06-08T08:39:49Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21466
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: The Gastrodia anti-fungal protein (GAFP-1) is a mannose-binding lectin which is able to inhibit the growth of multiples species of plant pathogenic fungi. The RBS used is a strong RBS for Bacillus subtilis (K780002).
mutable notes: This part is composed of a Strong RBS (K780002) and the open reading frame of the Gastrodia anti-fungal protein 1 (GAFP-1) optimized for its expression and its secretion in Bacillus subtilis. The codon optimization was made thanks to the DNA 2.0 software program.
mutable provenance: This gene was ordered from a synthesis company.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Translational Unit
role: SO:0000804
sequence annotation: strong RBS K780002
sequence annotation: GAFP-1
sequence annotation: Signal peptide
sequence annotation: Propeptide
sequence: https://synbiohub.org/public/igem/BBa_K1364002_sequence/1

strong RBS K780002
type: SequenceAnnotation
persistent identity: annotation2391440
display id: annotation2391440
version: 1
top level: GAFP-1
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1364002/annotation2391440/range2391440/1

https://synbiohub.org/public/igem/BBa_K1364002/annotation2391440/range2391440/1
type: Range
persistent identity: range2391440
display id: range2391440
version: 1
direction: direction/forward
top level: GAFP-1
start: 1
end: 16
orientation: inline

GAFP-1
type: SequenceAnnotation
persistent identity: annotation2391443
display id: annotation2391443
version: 1
top level: GAFP-1
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1364002/annotation2391443/range2391443/1

https://synbiohub.org/public/igem/BBa_K1364002/annotation2391443/range2391443/1
type: Range
persistent identity: range2391443
display id: range2391443
version: 1
direction: direction/forward
top level: GAFP-1
start: 140
end: 187
orientation: inline

Signal peptide
type: SequenceAnnotation
persistent identity: annotation2391441
display id: annotation2391441
version: 1
top level: GAFP-1
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364002/annotation2391441/range2391441/1

https://synbiohub.org/public/igem/BBa_K1364002/annotation2391441/range2391441/1
type: Range
persistent identity: range2391441
display id: range2391441
version: 1
direction: direction/forward
top level: GAFP-1
start: 17
end: 97
orientation: inline

Propeptide
type: SequenceAnnotation
persistent identity: annotation2391442
display id: annotation2391442
version: 1
top level: GAFP-1
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364002/annotation2391442/range2391442/1

https://synbiohub.org/public/igem/BBa_K1364002/annotation2391442/range2391442/1
type: Range
persistent identity: range2391442
display id: range2391442
version: 1
direction: direction/forward
top level: GAFP-1
start: 98
end: 139
orientation: inline

BBa_K541915
type: ComponentDefinition
persistent identity: BBa K541915
display id: BBa_K541915
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Multi-host vector pTG262 converted to BioBrick vector wtih LALF protein and SacB signal peptide
creator: Mustafa Elitok
created: 2011-09-20T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: true
experience: experience/Works
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: Horseshoe crab
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
component: BBa_K541515
component: BBa_I742123
sequence annotation: BBa_I742123
sequence annotation: BBa_K541515
sequence: https://synbiohub.org/public/igem/BBa_K541915_sequence/1

BBa_K541515
type: Component
persistent identity: component2136461
display id: component2136461
version: 1
top level: BBa_K541915
access: public
definition: https://synbiohub.org/public/igem/BBa_K541515/1

BBa_I742123
type: Component
persistent identity: component2136452
display id: component2136452
version: 1
top level: BBa_K541915
access: public
definition: pTG262-BB

BBa_I742123
type: SequenceAnnotation
persistent identity: annotation2136452
display id: annotation2136452
version: 1
top level: BBa_K541915
location: https://synbiohub.org/public/igem/BBa_K541915/annotation2136452/range2136452/1
component: BBa_I742123

https://synbiohub.org/public/igem/BBa_K541915/annotation2136452/range2136452/1
type: Range
persistent identity: range2136452
display id: range2136452
version: 1
direction: direction/reverse
top level: BBa_K541915
start: 1
end: 5564
orientation: inline

BBa_K541515
type: SequenceAnnotation
persistent identity: annotation2136461
display id: annotation2136461
version: 1
top level: BBa_K541915
location: https://synbiohub.org/public/igem/BBa_K541915/annotation2136461/range2136461/1
component: BBa_K541515

https://synbiohub.org/public/igem/BBa_K541915/annotation2136461/range2136461/1
type: Range
persistent identity: range2136461
display id: range2136461
version: 1
direction: direction/reverse
top level: BBa_K541915
start: 5573
end: 6109
orientation: inline

BBa_K1185001
type: ComponentDefinition
persistent identity: BBa K1185001
display id: BBa_K1185001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: HBsu-sfGFP
creator: Vincent Leonardo
created: 2013-08-28T11:00:00Z
modified: 2015-06-08T09:31:00Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1498_
m user id: 4206
owner id: 16794
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This BioBrick codes for a HBsu protein attached to a superfolded green fluorescent protein (sfGFP). HBsu is a non-specific DNA binding protein that binds to DNA as a homodimer. The HBsu is joined to the sfGFP through ten amino acid flexible linker sequence. This allows the observation of ''Bacillus subtilis'' DNA using fluorescence microscopy. The integration strategy that we opted for was to clone in the BioBrick into the Multiple cloning site of pMutin4 backbone. First we attached HindIII restriction sites on 5'end and SacII restriction sites on 3'end of the BioBrick. We then cut the pMutin4 backbone and BioBrick using the previously mentioned restriction enzymes, this allowed us to ligate the plasmid and BioBrick together. We also attached a ~300bp amyE homology region onto the 3'end of the BioBrick after the SacII to allow the single cross over and integration of the whole plasmid into the genome. The pMutin4 plasmid contains a ery+ resistance marker for ''B.subtilis'' and amp+ for ''E.coli'' and also contains lacI, lacZ and Pspac promoter which is an IPTG induced promoter which regulated the transcription of this BioBrick. An alternative method to use this part would be to clone this BioBrick out and use any Assembly protocol to attach a desired promoter, RBS and antibiotic resistance genes.
mutable notes: None
mutable provenance: The source of the HBsu coding sequence was the ''B. subtilis'' strain 168 genome, SwissProtTM accession number: P08821. The sfGFP sequence was sourced from BBa_E0040 and the linker from: BBa_K105012.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: hbs
sequence annotation: linker sequence BBa_K105012
sequence annotation: sfGFP_BBa_I746916
sequence annotation: 3-frame stop codon
sequence annotation: RBS-with post spacer
sequence: https://synbiohub.org/public/igem/BBa_K1185001_sequence/1

hbs
type: SequenceAnnotation
persistent identity: annotation2333332
display id: annotation2333332
version: 1
top level: BBa_K1185001
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1185001/annotation2333332/range2333332/1

https://synbiohub.org/public/igem/BBa_K1185001/annotation2333332/range2333332/1
type: Range
persistent identity: range2333332
display id: range2333332
version: 1
direction: direction/forward
top level: BBa_K1185001
start: 21
end: 296
orientation: inline

linker sequence BBa_K105012
type: SequenceAnnotation
persistent identity: annotation2333334
display id: annotation2333334
version: 1
top level: BBa_K1185001
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185001/annotation2333334/range2333334/1

https://synbiohub.org/public/igem/BBa_K1185001/annotation2333334/range2333334/1
type: Range
persistent identity: range2333334
display id: range2333334
version: 1
direction: direction/forward
top level: BBa_K1185001
start: 297
end: 326
orientation: inline

sfGFP_BBa_I746916
type: SequenceAnnotation
persistent identity: annotation2333335
display id: annotation2333335
version: 1
top level: BBa_K1185001
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185001/annotation2333335/range2333335/1

https://synbiohub.org/public/igem/BBa_K1185001/annotation2333335/range2333335/1
type: Range
persistent identity: range2333335
display id: range2333335
version: 1
direction: direction/forward
top level: BBa_K1185001
start: 327
end: 1046
orientation: inline

3-frame stop codon
type: SequenceAnnotation
persistent identity: annotation2333336
display id: annotation2333336
version: 1
top level: BBa_K1185001
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1185001/annotation2333336/range2333336/1

https://synbiohub.org/public/igem/BBa_K1185001/annotation2333336/range2333336/1
type: Range
persistent identity: range2333336
display id: range2333336
version: 1
direction: direction/forward
top level: BBa_K1185001
start: 1047
end: 1054
orientation: inline

RBS-with post spacer
type: SequenceAnnotation
persistent identity: annotation2333331
display id: annotation2333331
version: 1
top level: BBa_K1185001
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1185001/annotation2333331/range2333331/1

https://synbiohub.org/public/igem/BBa_K1185001/annotation2333331/range2333331/1
type: Range
persistent identity: range2333331
display id: range2333331
version: 1
direction: direction/forward
top level: BBa_K1185001
start: 1
end: 20
orientation: inline

PbrR
type: ComponentDefinition
persistent identity: BBa K1701001
display id: BBa_K1701001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PbrR
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2016-01-11T03:17:03Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 4206
owner id: 21319
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: A lead-specific binding protein, PbrR, and promoter pbr from the lead resistance operon, pbr, of Cupriavidus metallidurans CH34 have shown highly sensitive and selective whole-cell detection of lead ions.
mutable notes: none
mutable provenance: http://www.ncbi.nlm.nih.gov/protein/56130720
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1701001_sequence/1

BBa_I746666
type: ComponentDefinition
persistent identity: BBa I746666
display id: BBa_I746666
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pspac-hy with GFP
creator: Yue Miao
created: 2007-10-22T11:00:00Z
modified: 2015-08-31T04:08:05Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _116_
m user id: 0
owner id: 2275
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Pspac-hy is a B.subtilis/E.coli promotor inducible by IPTG. It's a hybrid of the phage SPO-1 promotor and lac operator with a point G->T mutation at the -1 site.
mutable notes: point G->T mutation at the -1 site
mutable provenance: pPL 82 vector
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_B0012
component: BBa_B0010
component: BBa_E0040
component: BBa_I746665
component: BBa_B0034
sequence annotation: BBa_E0040
sequence annotation: BBa_B0012
sequence annotation: BBa_B0010
sequence annotation: BBa_B0034
sequence annotation: BBa_I746665
sequence: https://synbiohub.org/public/igem/BBa_I746666_sequence/1

BBa_B0012
type: Component
persistent identity: component1953839
display id: component1953839
version: 1
top level: BBa_I746666
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0010
type: Component
persistent identity: component1953837
display id: component1953837
version: 1
top level: BBa_I746666
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_E0040
type: Component
persistent identity: component1953836
display id: component1953836
version: 1
top level: BBa_I746666
access: public
definition: GFP

BBa_I746665
type: Component
persistent identity: component1953832
display id: component1953832
version: 1
top level: BBa_I746666
access: public
definition: Pspac-hy

BBa_B0034
type: Component
persistent identity: component1953834
display id: component1953834
version: 1
top level: BBa_I746666
access: public
definition: https://synbiohub.org/public/igem/BBa_B0034/1

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation1953836
display id: annotation1953836
version: 1
top level: BBa_I746666
location: https://synbiohub.org/public/igem/BBa_I746666/annotation1953836/range1953836/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_I746666/annotation1953836/range1953836/1
type: Range
persistent identity: range1953836
display id: range1953836
version: 1
direction: direction/reverse
top level: BBa_I746666
start: 85
end: 804
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1953839
display id: annotation1953839
version: 1
top level: BBa_I746666
location: https://synbiohub.org/public/igem/BBa_I746666/annotation1953839/range1953839/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_I746666/annotation1953839/range1953839/1
type: Range
persistent identity: range1953839
display id: range1953839
version: 1
direction: direction/forward
top level: BBa_I746666
start: 901
end: 941
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1953837
display id: annotation1953837
version: 1
top level: BBa_I746666
location: https://synbiohub.org/public/igem/BBa_I746666/annotation1953837/range1953837/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_I746666/annotation1953837/range1953837/1
type: Range
persistent identity: range1953837
display id: range1953837
version: 1
direction: direction/forward
top level: BBa_I746666
start: 813
end: 892
orientation: inline

BBa_B0034
type: SequenceAnnotation
persistent identity: annotation1953834
display id: annotation1953834
version: 1
top level: BBa_I746666
location: https://synbiohub.org/public/igem/BBa_I746666/annotation1953834/range1953834/1
component: BBa_B0034

https://synbiohub.org/public/igem/BBa_I746666/annotation1953834/range1953834/1
type: Range
persistent identity: range1953834
display id: range1953834
version: 1
direction: direction/reverse
top level: BBa_I746666
start: 67
end: 78
orientation: inline

BBa_I746665
type: SequenceAnnotation
persistent identity: annotation1953832
display id: annotation1953832
version: 1
top level: BBa_I746666
location: https://synbiohub.org/public/igem/BBa_I746666/annotation1953832/range1953832/1
component: BBa_I746665

https://synbiohub.org/public/igem/BBa_I746666/annotation1953832/range1953832/1
type: Range
persistent identity: range1953832
display id: range1953832
version: 1
direction: direction/reverse
top level: BBa_I746666
start: 1
end: 58
orientation: inline

pSBBs2E
type: ComponentDefinition
persistent identity: BBa K823027
display id: BBa_K823027
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs2E: Empty backbone for integration into Bacillus subtilis lacA locus
creator: Jara Radeck
created: 2012-08-20T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is an empty backbone vector for the usage in Bacillus subtilis. It integrates in the lacA locus and can be selected with erythromycin + lincomycin (MLS). It has a ampicillin resistance for cloning in E.coli. This BioBrick is part of the LMU 2012 Bacillus BioBrick Box project: http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks
mutable notes: We removed any forbidden restriction sites by site-directed mutagenesis PCR. The clonging site also includes a rfp for selection in E.coli.
mutable provenance: This part is an igem compatible version of the Bacillus subtilis vector pAX01
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: lacA'
sequence annotation: erm
sequence annotation: 'lacA
sequence annotation: bla
sequence: https://synbiohub.org/public/igem/BBa_K823027_sequence/1

lacA'
type: SequenceAnnotation
persistent identity: annotation2180264
display id: annotation2180264
version: 1
top level: pSBBs2E
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823027/annotation2180264/range2180264/1

https://synbiohub.org/public/igem/BBa_K823027/annotation2180264/range2180264/1
type: Range
persistent identity: range2180264
display id: range2180264
version: 1
direction: direction/reverse
top level: pSBBs2E
start: 1600
end: 2100
orientation: inline

erm
type: SequenceAnnotation
persistent identity: annotation2180263
display id: annotation2180263
version: 1
top level: pSBBs2E
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823027/annotation2180263/range2180263/1

https://synbiohub.org/public/igem/BBa_K823027/annotation2180263/range2180263/1
type: Range
persistent identity: range2180263
display id: range2180263
version: 1
direction: direction/forward
top level: pSBBs2E
start: 500
end: 1300
orientation: inline

'lacA
type: SequenceAnnotation
persistent identity: annotation2180266
display id: annotation2180266
version: 1
top level: pSBBs2E
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823027/annotation2180266/range2180266/1

https://synbiohub.org/public/igem/BBa_K823027/annotation2180266/range2180266/1
type: Range
persistent identity: range2180266
display id: range2180266
version: 1
direction: direction/reverse
top level: pSBBs2E
start: 5600
end: 6100
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2180265
display id: annotation2180265
version: 1
top level: pSBBs2E
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823027/annotation2180265/range2180265/1

https://synbiohub.org/public/igem/BBa_K823027/annotation2180265/range2180265/1
type: Range
persistent identity: range2180265
display id: range2180265
version: 1
direction: direction/reverse
top level: pSBBs2E
start: 4603
end: 5400
orientation: inline

cotZ
type: ComponentDefinition
persistent identity: BBa K823031
display id: BBa_K823031
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: cotZ: B. subtilis spore crust protein (-2aa)
creator: Franziska D??rr
created: 2012-09-05T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12084
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: crust protein See all the details about the LMU-Munich 2012 project here: http://2012.igem.org/Team:LMU-Munich/Spore_Coat_Proteins
mutable notes: We designed it in Freiburg standard (Assembly 25) and used it for the display of fusion proteins on B. subtilis spores.
mutable provenance: B. subtillis W168 genome
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: cotZ
sequence: https://synbiohub.org/public/igem/BBa_K823031_sequence/1

cotZ
type: SequenceAnnotation
persistent identity: annotation2181858
display id: annotation2181858
version: 1
top level: cotZ
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823031/annotation2181858/range2181858/1

https://synbiohub.org/public/igem/BBa_K823031/annotation2181858/range2181858/1
type: Range
persistent identity: range2181858
display id: range2181858
version: 1
direction: direction/forward
top level: cotZ
start: 1
end: 435
orientation: inline

BBa_K802008
type: ComponentDefinition
persistent identity: BBa K802008
display id: BBa_K802008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Transcriptional Bacillus regulator lacI
creator: Ioana Sandu, Ga??l Chambonnier
created: 2012-09-24T11:00:00Z
modified: 2016-02-01T01:02:15Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1058_
m user id: 4206
owner id: 13266
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: The lacI gene encodes a regulator protein for the lactose operon and the hyper-spank promoter of B. subtilis [1].
mutable notes: The part has a Bacillus RBS, but it has no promoter.
mutable provenance: The LacI gene was cloned from the B. subtilis shuttle vector pDR111. [2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K802008_sequence/1

BBa_K104009
type: ComponentDefinition
persistent identity: BBa K104009
display id: BBa_K104009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS_gfp
creator: Anil Wipat
created: 2009-10-13T11:00:00Z
modified: 2015-06-09T08:54:42Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is a ribosome binding site, experimentally verified to work in Bacillus, derived from gfp.
mutable notes: This RBS forms part of the complex device BBa_K104001
mutable provenance: A variant of that associated with gfp.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: rbs_gfp
sequence: https://synbiohub.org/public/igem/BBa_K104009_sequence/1

rbs_gfp
type: SequenceAnnotation
persistent identity: annotation2040706
display id: annotation2040706
version: 1
top level: BBa_K104009
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K104009/annotation2040706/range2040706/1

https://synbiohub.org/public/igem/BBa_K104009/annotation2040706/range2040706/1
type: Range
persistent identity: range2040706
display id: range2040706
version: 1
direction: direction/forward
top level: BBa_K104009
start: 1
end: 8
orientation: inline

LipA-EAK16
type: ComponentDefinition
persistent identity: BBa K143034
display id: BBa_K143034
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LipA-EAK16-II Fusion Protein
creator: Qin Qi
created: 2008-09-17T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3429
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: EAK16-II is a sixteen amino acid peptide that self-assembles to form β-sheet structures in an aqueous medium. The alternating positive and negative charges (--++--++) are responsible for creating an electrostatic attraction between adjacent peptides 1, triggering self-assembly when the EAK16-II peptides are exposed to physiological media or salt solution. When examined under SEM, a well-ordered nanofibre structure is formed by the association of the EAK16-II peptides and these nanofibres can futher aggregate to form a membranous 3D scaffold. LipA is a signal peptide from the B.subtilis genome. In general, signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached)through an appropriate secretory pathway2. LipA has been successfully used in the secretion of heterologous proteins such as cutinase by ''B. subtilis''.
mutable notes: BioBrick standard was applied to LipA-EAK16II Fusion Protein.
mutable provenance: EAK16-II was identified as a region in zuotin, a Z-DNA binding protein from the yeast genome. LipA originated from the B. subtilis genome3. Both components were produced as a fusion protein by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: start
sequence annotation: stop
sequence annotation: LipA
sequence annotation: EAK16-II
sequence: https://synbiohub.org/public/igem/BBa_K143034_sequence/1

start
type: SequenceAnnotation
persistent identity: annotation1992706
display id: annotation1992706
version: 1
top level: LipA-EAK16
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143034/annotation1992706/range1992706/1

https://synbiohub.org/public/igem/BBa_K143034/annotation1992706/range1992706/1
type: Range
persistent identity: range1992706
display id: range1992706
version: 1
direction: direction/forward
top level: LipA-EAK16
start: 1
end: 3
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992705
display id: annotation1992705
version: 1
top level: LipA-EAK16
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143034/annotation1992705/range1992705/1

https://synbiohub.org/public/igem/BBa_K143034/annotation1992705/range1992705/1
type: Range
persistent identity: range1992705
display id: range1992705
version: 1
direction: direction/forward
top level: LipA-EAK16
start: 151
end: 153
orientation: inline

LipA
type: SequenceAnnotation
persistent identity: annotation1976427
display id: annotation1976427
version: 1
top level: LipA-EAK16
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143034/annotation1976427/range1976427/1

https://synbiohub.org/public/igem/BBa_K143034/annotation1976427/range1976427/1
type: Range
persistent identity: range1976427
display id: range1976427
version: 1
direction: direction/forward
top level: LipA-EAK16
start: 1
end: 102
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992704
display id: annotation1992704
version: 1
top level: LipA-EAK16
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143034/annotation1992704/range1992704/1

https://synbiohub.org/public/igem/BBa_K143034/annotation1992704/range1992704/1
type: Range
persistent identity: range1992704
display id: range1992704
version: 1
direction: direction/forward
top level: LipA-EAK16
start: 154
end: 156
orientation: inline

EAK16-II
type: SequenceAnnotation
persistent identity: annotation1992703
display id: annotation1992703
version: 1
top level: LipA-EAK16
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143034/annotation1992703/range1992703/1

https://synbiohub.org/public/igem/BBa_K143034/annotation1992703/range1992703/1
type: Range
persistent identity: range1992703
display id: range1992703
version: 1
direction: direction/forward
top level: LipA-EAK16
start: 103
end: 150
orientation: inline

BBa_K1937004
type: ComponentDefinition
persistent identity: BBa K1937004
display id: BBa_K1937004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pNagA-RFP in pSBBs0K-mini plasmid
creator: Oumnia KARIM
created: 2016-10-12T11:00:00Z
modified: 2016-10-17T01:24:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2404_
m user id: 21497
owner id: 30403
owning group id: 9
status: status/Planning
bookmark: false
mutable description: (Chassis B. subtilis, carrier plasmid pBS0K) Length: 6843 bp Background: pNagA is the promoter of the NagA gene, which expresses a N-acetylglucosamine-6-phosphate deacetylasein in Bacillus subtilis. In bacillus subtilis, this promoter has been reported to induce expression in presence of N-acetylglucosamine 6-phosphate. This NAG molecule is the major component of chitin, a characteristic molecule of fungi. This BioBrick is a part developed by the Toulouse 2016 iGEM team (http://2016.igem.org/Team:Toulouse_France)
mutable notes: The part includes the pNagA promoter and its RBS (position 3,595,156 to 3,595,356 of the Bacillus genome). The promoter controls the expression of the RFP fluorescent reporter gene. A NheI restriction site has been placed before the RFP ORF to facilitate promoter swapping.This part is a subcloning of BBa_K1937003 pNagA part in pSBBS0K_mini plasmid (BBa_K1937001).
mutable provenance: The part include the pNagA promoter and its RBS (position 3,595,156 to 3,595,356 of the Bacillus genome). The promoter controls the expression of the RFP fluorescent reporter gene. A NheI restriction site has been placed before the RFP ORF to facilitate promoter swapping.This part is a subcloning of BBa_K1937003 pNagA part in pSBBS0K_mini plasmid (BBa_K1937001). In bacillus subtilis, this promoter has been reported to induce expression in presence of N-acetylglucosamine 6-phosphate.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1937001
component: BBa_K1937003
sequence annotation: BBa_K1937001
sequence annotation: BBa_K1937003
sequence: https://synbiohub.org/public/igem/BBa_K1937004_sequence/1

BBa_K1937001
type: Component
persistent identity: component2497461
display id: component2497461
version: 1
top level: BBa_K1937004
access: public
definition: BBa_K1937001

BBa_K1937003
type: Component
persistent identity: component2497451
display id: component2497451
version: 1
top level: BBa_K1937004
access: public
definition: BBa_K1937003

BBa_K1937001
type: SequenceAnnotation
persistent identity: annotation2497461
display id: annotation2497461
version: 1
top level: BBa_K1937004
location: https://synbiohub.org/public/igem/BBa_K1937004/annotation2497461/range2497461/1
component: BBa_K1937001

https://synbiohub.org/public/igem/BBa_K1937004/annotation2497461/range2497461/1
type: Range
persistent identity: range2497461
display id: range2497461
version: 1
direction: direction/reverse
top level: BBa_K1937004
start: 1001
end: 6857
orientation: inline

BBa_K1937003
type: SequenceAnnotation
persistent identity: annotation2497451
display id: annotation2497451
version: 1
top level: BBa_K1937004
location: https://synbiohub.org/public/igem/BBa_K1937004/annotation2497451/range2497451/1
component: BBa_K1937003

https://synbiohub.org/public/igem/BBa_K1937004/annotation2497451/range2497451/1
type: Range
persistent identity: range2497451
display id: range2497451
version: 1
direction: direction/reverse
top level: BBa_K1937004
start: 1
end: 992
orientation: inline

BBa_K1074006
type: ComponentDefinition
persistent identity: BBa K1074006
display id: BBa_K1074006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pgrac+RBS+SamyQ+TD1+GFP
creator: Changlong Zhao
created: 2013-09-08T11:00:00Z
modified: 2015-06-08T02:56:46Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1383_
m user id: 4206
owner id: 16001
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: This is the main circuit of our project to allow high expression of target protein(antigen,adjuvant).GFP can be substituted by various proteins via a modular PCR or standard cut/ligation method.
mutable notes: The transdermal-enhancing activity of the TD1 is sequence specific and dose dependent.
mutable provenance: synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1074015
component: BBa_K1074014
component: BBa_K1074012
component: BBa_K1074000
component: BBa_E0040
sequence annotation: BBa_K1074014
sequence annotation: BBa_K1074015
sequence annotation: BBa_E0040
sequence annotation: BBa_K1074000
sequence annotation: BBa_K1074012
sequence: https://synbiohub.org/public/igem/BBa_K1074006_sequence/1

BBa_K1074015
type: Component
persistent identity: component2362104
display id: component2362104
version: 1
top level: BBa_K1074006
access: public
definition: https://synbiohub.org/public/igem/BBa_K1074015/1

BBa_K1074014
type: Component
persistent identity: component2362105
display id: component2362105
version: 1
top level: BBa_K1074006
access: public
definition: https://synbiohub.org/public/igem/BBa_K1074014/1

BBa_K1074012
type: Component
persistent identity: component2362103
display id: component2362103
version: 1
top level: BBa_K1074006
access: public
definition: https://synbiohub.org/public/igem/BBa_K1074012/1

BBa_K1074000
type: Component
persistent identity: component2362106
display id: component2362106
version: 1
top level: BBa_K1074006
access: public
definition: https://synbiohub.org/public/igem/BBa_K1074000/1

BBa_E0040
type: Component
persistent identity: component2362108
display id: component2362108
version: 1
top level: BBa_K1074006
access: public
definition: GFP

BBa_K1074014
type: SequenceAnnotation
persistent identity: annotation2362105
display id: annotation2362105
version: 1
top level: BBa_K1074006
location: https://synbiohub.org/public/igem/BBa_K1074006/annotation2362105/range2362105/1
component: BBa_K1074014

https://synbiohub.org/public/igem/BBa_K1074006/annotation2362105/range2362105/1
type: Range
persistent identity: range2362105
display id: range2362105
version: 1
direction: direction/reverse
top level: BBa_K1074006
start: 201
end: 293
orientation: inline

BBa_K1074015
type: SequenceAnnotation
persistent identity: annotation2362104
display id: annotation2362104
version: 1
top level: BBa_K1074006
location: https://synbiohub.org/public/igem/BBa_K1074006/annotation2362104/range2362104/1
component: BBa_K1074015

https://synbiohub.org/public/igem/BBa_K1074006/annotation2362104/range2362104/1
type: Range
persistent identity: range2362104
display id: range2362104
version: 1
direction: direction/reverse
top level: BBa_K1074006
start: 179
end: 194
orientation: inline

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation2362108
display id: annotation2362108
version: 1
top level: BBa_K1074006
location: https://synbiohub.org/public/igem/BBa_K1074006/annotation2362108/range2362108/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_K1074006/annotation2362108/range2362108/1
type: Range
persistent identity: range2362108
display id: range2362108
version: 1
direction: direction/reverse
top level: BBa_K1074006
start: 341
end: 1060
orientation: inline

BBa_K1074000
type: SequenceAnnotation
persistent identity: annotation2362106
display id: annotation2362106
version: 1
top level: BBa_K1074006
location: https://synbiohub.org/public/igem/BBa_K1074006/annotation2362106/range2362106/1
component: BBa_K1074000

https://synbiohub.org/public/igem/BBa_K1074006/annotation2362106/range2362106/1
type: Range
persistent identity: range2362106
display id: range2362106
version: 1
direction: direction/reverse
top level: BBa_K1074006
start: 302
end: 334
orientation: inline

BBa_K1074012
type: SequenceAnnotation
persistent identity: annotation2362103
display id: annotation2362103
version: 1
top level: BBa_K1074006
location: https://synbiohub.org/public/igem/BBa_K1074006/annotation2362103/range2362103/1
component: BBa_K1074012

https://synbiohub.org/public/igem/BBa_K1074006/annotation2362103/range2362103/1
type: Range
persistent identity: range2362103
display id: range2362103
version: 1
direction: direction/reverse
top level: BBa_K1074006
start: 1
end: 170
orientation: inline

BBa_K1351029
type: ComponentDefinition
persistent identity: BBa K1351029
display id: BBa_K1351029
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 2
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:10:03Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351029_sequence/1

BBa_K541024
type: ComponentDefinition
persistent identity: BBa K541024
display id: BBa_K541024
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin 1A (SacB) and LALF (SacB) protein for B.Subtilis
creator: Mustafa Elitok
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli. On the other hand, Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: LALF from Horseshoe crab, Reflectin from Cephalopod, promoter-RBS from B.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: BBa_K541020
sequence annotation: BBa_K143053
sequence annotation: BBa_K143021
sequence annotation: LALF
sequence annotation: Sigma A -10
sequence annotation: Sigma A-35
sequence annotation: BBa_K541013
sequence annotation: BBa_K143012
sequence annotation: BBa_K541001
sequence annotation: SacB
sequence annotation: rbs
sequence annotation: Reflectin
sequence: https://synbiohub.org/public/igem/BBa_K541024_sequence/1

BBa_K541020
type: SequenceAnnotation
persistent identity: annotation2123581
display id: annotation2123581
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123581/range2123581/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123581/range2123581/1
type: Range
persistent identity: range2123581
display id: range2123581
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 546
end: 1523
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2123565
display id: annotation2123565
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123565/range2123565/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123565/range2123565/1
type: Range
persistent identity: range2123565
display id: range2123565
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 1
end: 117
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123569
display id: annotation2123569
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123569/range2123569/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123569/range2123569/1
type: Range
persistent identity: range2123569
display id: range2123569
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 106
end: 117
orientation: inline

LALF
type: SequenceAnnotation
persistent identity: annotation2123572
display id: annotation2123572
version: 1
top level: BBa_K541024
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123572/range2123572/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123572/range2123572/1
type: Range
persistent identity: range2123572
display id: range2123572
version: 1
direction: direction/forward
top level: BBa_K541024
start: 226
end: 537
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2123576
display id: annotation2123576
version: 1
top level: BBa_K541024
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123576/range2123576/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123576/range2123576/1
type: Range
persistent identity: range2123576
display id: range2123576
version: 1
direction: direction/forward
top level: BBa_K541024
start: 631
end: 636
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123577
display id: annotation2123577
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123577/range2123577/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123577/range2123577/1
type: Range
persistent identity: range2123577
display id: range2123577
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 651
end: 662
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2123575
display id: annotation2123575
version: 1
top level: BBa_K541024
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123575/range2123575/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123575/range2123575/1
type: Range
persistent identity: range2123575
display id: range2123575
version: 1
direction: direction/forward
top level: BBa_K541024
start: 608
end: 613
orientation: inline

BBa_K541013
type: SequenceAnnotation
persistent identity: annotation2123580
display id: annotation2123580
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123580/range2123580/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123580/range2123580/1
type: Range
persistent identity: range2123580
display id: range2123580
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 669
end: 1523
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123566
display id: annotation2123566
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123566/range2123566/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123566/range2123566/1
type: Range
persistent identity: range2123566
display id: range2123566
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 1
end: 97
orientation: inline

BBa_K541001
type: SequenceAnnotation
persistent identity: annotation2123573
display id: annotation2123573
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123573/range2123573/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123573/range2123573/1
type: Range
persistent identity: range2123573
display id: range2123573
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 1
end: 537
orientation: inline

SacB
type: SequenceAnnotation
persistent identity: annotation2123571
display id: annotation2123571
version: 1
top level: BBa_K541024
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123571/range2123571/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123571/range2123571/1
type: Range
persistent identity: range2123571
display id: range2123571
version: 1
direction: direction/forward
top level: BBa_K541024
start: 124
end: 219
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2123578
display id: annotation2123578
version: 1
top level: BBa_K541024
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123578/range2123578/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123578/range2123578/1
type: Range
persistent identity: range2123578
display id: range2123578
version: 1
direction: direction/forward
top level: BBa_K541024
start: 651
end: 662
orientation: inline

Reflectin
type: SequenceAnnotation
persistent identity: annotation2123579
display id: annotation2123579
version: 1
top level: BBa_K541024
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123579/range2123579/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123579/range2123579/1
type: Range
persistent identity: range2123579
display id: range2123579
version: 1
direction: direction/forward
top level: BBa_K541024
start: 669
end: 1523
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123574
display id: annotation2123574
version: 1
top level: BBa_K541024
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123574/range2123574/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123574/range2123574/1
type: Range
persistent identity: range2123574
display id: range2123574
version: 1
direction: direction/reverse
top level: BBa_K541024
start: 546
end: 642
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2123570
display id: annotation2123570
version: 1
top level: BBa_K541024
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123570/range2123570/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123570/range2123570/1
type: Range
persistent identity: range2123570
display id: range2123570
version: 1
direction: direction/forward
top level: BBa_K541024
start: 106
end: 117
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2123567
display id: annotation2123567
version: 1
top level: BBa_K541024
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123567/range2123567/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123567/range2123567/1
type: Range
persistent identity: range2123567
display id: range2123567
version: 1
direction: direction/forward
top level: BBa_K541024
start: 63
end: 68
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2123568
display id: annotation2123568
version: 1
top level: BBa_K541024
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541024/annotation2123568/range2123568/1

https://synbiohub.org/public/igem/BBa_K541024/annotation2123568/range2123568/1
type: Range
persistent identity: range2123568
display id: range2123568
version: 1
direction: direction/forward
top level: BBa_K541024
start: 86
end: 91
orientation: inline

BBa_K823039
type: ComponentDefinition
persistent identity: BBa K823039
display id: BBa_K823039
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: gfpmut1 (B. subtilis optimized + Freiburg standard)
creator: Tamara Cikovic
created: 2012-09-07T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This gfpmut3 gene was amplified from pGFPamy B. subtilis vector. It is constructed in the Freiburg standard with RBS. prefix: GAATTCCGCGGCCGCTTCTAGATAAGGAGGAACTACTATGGCCGGC suffix: ACCGGTTAATACTAGTAGCGGCCGCTGCAGT
mutable notes: We designed this part in the Freiburg standard for N- and C-terminal fusions.
mutable provenance: Plasmid pGFPamy
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: gfpmut1
sequence: https://synbiohub.org/public/igem/BBa_K823039_sequence/1

gfpmut1
type: SequenceAnnotation
persistent identity: annotation2182335
display id: annotation2182335
version: 1
top level: BBa_K823039
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823039/annotation2182335/range2182335/1

https://synbiohub.org/public/igem/BBa_K823039/annotation2182335/range2182335/1
type: Range
persistent identity: range2182335
display id: range2182335
version: 1
direction: direction/forward
top level: BBa_K823039
start: 1
end: 845
orientation: inline

BBa_K1351034
type: ComponentDefinition
persistent identity: BBa K1351034
display id: BBa_K1351034
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 7
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T07:44:23Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351034_sequence/1

beta-galac
type: ComponentDefinition
persistent identity: BBa K823019
display id: BBa_K823019
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LacZ (RBS+Freiburg standard)
creator: Simon Kelterborn
created: 2012-08-14T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This lacZ gene is derived from the Bacillus reporter vector pAC6. It is constructed in the Freiburg Standard (Assembly 25) for in-frame fusion proteins. It also includes a Shine-Dalgarno Sequence optimized for Bacillus subtilis translation.
mutable notes: We constructed the part in the Freiburg standard (assembly 25) for inframe fusion-proteins. There is a Shine-Dalgarno Sequence included between the XbaI and the NgoIV restriction site. It can be used for both N and C terminal fusions.
mutable provenance: Bacillus subtilis reporter vector pAC6.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: lacZ
sequence: https://synbiohub.org/public/igem/BBa_K823019_sequence/1

lacZ
type: SequenceAnnotation
persistent identity: annotation2179569
display id: annotation2179569
version: 1
top level: beta-galac
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823019/annotation2179569/range2179569/1

https://synbiohub.org/public/igem/BBa_K823019/annotation2179569/range2179569/1
type: Range
persistent identity: range2179569
display id: range2179569
version: 1
direction: direction/forward
top level: beta-galac
start: 1
end: 3061
orientation: inline

BBa_K1085008
type: ComponentDefinition
persistent identity: BBa K1085008
display id: BBa_K1085008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SilkTail Stop-codon
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:11:21Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for silk tail and ends with a stop codon. The Tail ....
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acid sequence of the tail was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000417
role: partType/Protein Domain
sequence annotation: Stop codon (TGA)
sequence annotation: spidersilk C-terminal domain
sequence: https://synbiohub.org/public/igem/BBa_K1085008_sequence/1

Stop codon (TGA)
type: SequenceAnnotation
persistent identity: annotation2362390
display id: annotation2362390
version: 1
top level: BBa_K1085008
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1085008/annotation2362390/range2362390/1

https://synbiohub.org/public/igem/BBa_K1085008/annotation2362390/range2362390/1
type: Range
persistent identity: range2362390
display id: range2362390
version: 1
direction: direction/forward
top level: BBa_K1085008
start: 271
end: 273
orientation: inline

spidersilk C-terminal domain
type: SequenceAnnotation
persistent identity: annotation2339058
display id: annotation2339058
version: 1
top level: BBa_K1085008
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085008/annotation2339058/range2339058/1

https://synbiohub.org/public/igem/BBa_K1085008/annotation2339058/range2339058/1
type: Range
persistent identity: range2339058
display id: range2339058
version: 1
direction: direction/forward
top level: BBa_K1085008
start: 1
end: 270
orientation: inline

BBa_K143073
type: ComponentDefinition
persistent identity: BBa K143073
display id: BBa_K143073
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (Pveg-gsiB) (with CmR)
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to a chloramphenicol resistance generator in closed transcriptional unit (Parts BBa_K143052 and BBa_K143064 ) and the PoPS generator Pveg-gsiB ( BBa_K143052 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The chloramphenicol adenyltransferase give resistance to chloramphenicol while the terminator prevents readthrough. The Pveg-gsiB promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of Pveg-gsiB was obtained from papers. Chloramphenicol adenyltransferase and the double terminator were obtained from the registry.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the Pveg-gsiB that was synthesised by GeneArt and Chloramphenicol adenyltransferase and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_B0010
component: BBa_B0012
component: BBa_K143012
component: BBa_K143020
component: BBa_K143001
component: BBa_J31005
sequence annotation: BBa_K143001
sequence annotation: BBa_J31005
sequence annotation: BBa_K143020
sequence annotation: BBa_B0010
sequence annotation: BBa_B0012
sequence annotation: BBa_K143012
sequence: https://synbiohub.org/public/igem/BBa_K143073_sequence/1

BBa_B0010
type: Component
persistent identity: component1991884
display id: component1991884
version: 1
top level: BBa_K143073
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_B0012
type: Component
persistent identity: component1991886
display id: component1991886
version: 1
top level: BBa_K143073
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_K143012
type: Component
persistent identity: component1991892
display id: component1991892
version: 1
top level: BBa_K143073
access: public
definition: Pveg

BBa_K143020
type: Component
persistent identity: component1991881
display id: component1991881
version: 1
top level: BBa_K143073
access: public
definition: RBS-GsiB

BBa_K143020
type: Component
persistent identity: component1991894
display id: component1991894
version: 1
top level: BBa_K143073
access: public
definition: RBS-GsiB

BBa_K143001
type: Component
persistent identity: component1991876
display id: component1991876
version: 1
top level: BBa_K143073
access: public
definition: amyE 5 IS

BBa_J31005
type: Component
persistent identity: component1991883
display id: component1991883
version: 1
top level: BBa_K143073
access: public
definition: https://synbiohub.org/public/igem/BBa_J31005/1

BBa_K143012
type: Component
persistent identity: component1991879
display id: component1991879
version: 1
top level: BBa_K143073
access: public
definition: Pveg

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1991876
display id: annotation1991876
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991876/range1991876/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143073/annotation1991876/range1991876/1
type: Range
persistent identity: range1991876
display id: range1991876
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 1
end: 522
orientation: inline

BBa_J31005
type: SequenceAnnotation
persistent identity: annotation1991883
display id: annotation1991883
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991883/range1991883/1
component: BBa_J31005

https://synbiohub.org/public/igem/BBa_K143073/annotation1991883/range1991883/1
type: Range
persistent identity: range1991883
display id: range1991883
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 653
end: 1312
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1991881
display id: annotation1991881
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991881/range1991881/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143073/annotation1991881/range1991881/1
type: Range
persistent identity: range1991881
display id: range1991881
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 636
end: 646
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1991884
display id: annotation1991884
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991884/range1991884/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143073/annotation1991884/range1991884/1
type: Range
persistent identity: range1991884
display id: range1991884
version: 1
direction: direction/forward
top level: BBa_K143073
start: 1321
end: 1400
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1991886
display id: annotation1991886
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991886/range1991886/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143073/annotation1991886/range1991886/1
type: Range
persistent identity: range1991886
display id: range1991886
version: 1
direction: direction/forward
top level: BBa_K143073
start: 1409
end: 1449
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1991879
display id: annotation1991879
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991879/range1991879/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143073/annotation1991879/range1991879/1
type: Range
persistent identity: range1991879
display id: range1991879
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 531
end: 627
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1991892
display id: annotation1991892
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991892/range1991892/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143073/annotation1991892/range1991892/1
type: Range
persistent identity: range1991892
display id: range1991892
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 1458
end: 1554
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1991894
display id: annotation1991894
version: 1
top level: BBa_K143073
location: https://synbiohub.org/public/igem/BBa_K143073/annotation1991894/range1991894/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143073/annotation1991894/range1991894/1
type: Range
persistent identity: range1991894
display id: range1991894
version: 1
direction: direction/reverse
top level: BBa_K143073
start: 1563
end: 1573
orientation: inline

BBa_K1937010
type: ComponentDefinition
persistent identity: BBa K1937010
display id: BBa_K1937010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Epsilon/MazF toxin and antitoxin in pSBBS0K-mini
creator: Oumnia KARIM
created: 2016-10-13T11:00:00Z
modified: 2016-10-17T12:38:48Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _2404_
m user id: 21497
owner id: 30403
owning group id: 9
status: status/Planning
bookmark: false
mutable description: (Chassis B.subtilis, carrier plasmid pSBBS0K) Length: 6855 bp Background: This Epsilon/MazF part is one of the two components of a double toxin-antitoxin system. The part was designed to be carried on a plasmid while its counterpart MazE/Zeta was carried on another. Unfortunately, only Epsilon/MazF part was successfully cloned in E. coli. This BioBrick is a part developed by the Toulouse 2016 iGEM team (http://2016.igem.org/Team:Toulouse_France)
mutable notes: Epsilon and MazF are under the control of the promoter Pveg (constitutive promotor for B. subtilis) followed by a strong RBS. A theophylline-dependent riboswitch was used to prevent the MazE toxin expression during the cloning steps in presence of theophylline (Topp and Gallivan, 2008). Indeed, with an expressed toxin, it would be impossible to clone the Biobrick in E. coli.SacII and KpnI are the restriction sites placed respectively before and after the riboswitch so that this fragment can easily be replaced depending on the control we want to apply to the bacteria. The construction was created by integrating the EcorI-PstI fragment from BBa_K1937009 in the pSBBS0K-miniplasmid (BBa_K1937001).
mutable provenance: The gene Epsilon codes for a toxin countered by the anti-toxin Zeta (Zielenkiewicz and Cegłowski, 2005 ; Mutschler et al., 2011). The gene MazF encodes the anti-toxin for the MazE toxin (Bravo et al., 1987, Zhang et al., 2005, Wang et al., 2013).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1937001
component: BBa_K1937009
sequence annotation: BBa_K1937009
sequence annotation: BBa_K1937001
sequence: https://synbiohub.org/public/igem/BBa_K1937010_sequence/1

BBa_K1937001
type: Component
persistent identity: component2509807
display id: component2509807
version: 1
top level: BBa_K1937010
access: public
definition: BBa_K1937001

BBa_K1937009
type: Component
persistent identity: component2509815
display id: component2509815
version: 1
top level: BBa_K1937010
access: public
definition: https://synbiohub.org/public/igem/BBa_K1937009/1

BBa_K1937009
type: SequenceAnnotation
persistent identity: annotation2509815
display id: annotation2509815
version: 1
top level: BBa_K1937010
location: https://synbiohub.org/public/igem/BBa_K1937010/annotation2509815/range2509815/1
component: BBa_K1937009

https://synbiohub.org/public/igem/BBa_K1937010/annotation2509815/range2509815/1
type: Range
persistent identity: range2509815
display id: range2509815
version: 1
direction: direction/reverse
top level: BBa_K1937010
start: 5866
end: 6869
orientation: inline

BBa_K1937001
type: SequenceAnnotation
persistent identity: annotation2509807
display id: annotation2509807
version: 1
top level: BBa_K1937010
location: https://synbiohub.org/public/igem/BBa_K1937010/annotation2509807/range2509807/1
component: BBa_K1937001

https://synbiohub.org/public/igem/BBa_K1937010/annotation2509807/range2509807/1
type: Range
persistent identity: range2509807
display id: range2509807
version: 1
direction: direction/reverse
top level: BBa_K1937010
start: 1
end: 5857
orientation: inline

BBa_K143099
type: ComponentDefinition
persistent identity: BBa K143099
display id: BBa_K143099
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Bacillus subtilis subspecies 168
creator: Chris Hirst
created: 2008-10-29T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: No part sequence
status: status/Planning
bookmark: false
mutable description: ''Bacillus subtilis'' is a the most highly studied gram positive bacterium. In particular, it possess effective secretion systems, is known to be naturally competent for the uptake of DNA and is highly motile. Subspecies 168 is one of the most commonly used in the laboratory and its specific genome has been sequenced.
mutable provenance: ''Bacillus subtilis'' subspecies 168
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Cell
role: SO:0000340

epsE 3 IS
type: ComponentDefinition
persistent identity: BBa K143006
display id: BBa_K143006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 3??? Integration Sequence for the epsE locus of B. subtilis
creator: Chris Hirst
created: 2008-09-11T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Integration sequences allow DNA to be incorporated into the chromosome of a host cell at a specific locus using leading (5') and trailing (3') DNA sequences that are the same as those at a specific locus of the chromosome. The 5' integration sequence can be added to the front of a Biobrick construct and the 3' integration sequence specific for this locus (Part BBa_K143005) to the rear of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The EpsE (aka YveO) locus has to our knowledge never been used for integration into ''B.subtilis'' before, but is useful in that it knocks out the potential molecular clutch EpsE gene #1. In particular, both the 5' and 3' integration sequences for the EpsE locus conatin in-frame stop codons to prevent translation of the gene (if nothing is integrated into the locus, integration also prevents correct EpsE expression). The 5' and 3' integration sequences for the EpsE locus were used to integrate over the EpsE gene and prevent its expression in the Imperial 2008 iGEM project ''B.sutbilis'' host. ===References=== #1 pmid=18566286
mutable notes: The EpsE integration sequences were designed from the EpsE (aka YveO) gene's Genbank entry#1 and identification of the sequence directly upstream of the gene on the chromosome (found using NCBI's sequence viewer). The upstream and EpsE gene sequence was analysed for restriction sites and primers (with biobrick prefix and suffix sequences) for two approximately equally sized integration sequences were desgined. The integration sequences were then produced by PCR cloning with Pfu DNA polymerase ===Reference=== #1 http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene, Gene ID:938633
mutable provenance: The 3??? integration sequence was taken from the ''B.subtilis'' chromosome and is homologous to the middle section of the EpsE gene. It was produced by PCR cloning with Pfu DNA polymerase
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: In frame stop codon
sequence annotation: 3??? EpsE Integration Sequence
sequence: https://synbiohub.org/public/igem/BBa_K143006_sequence/1

In frame stop codon
type: SequenceAnnotation
persistent identity: annotation1975712
display id: annotation1975712
version: 1
top level: epsE 3 IS
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143006/annotation1975712/range1975712/1

https://synbiohub.org/public/igem/BBa_K143006/annotation1975712/range1975712/1
type: Range
persistent identity: range1975712
display id: range1975712
version: 1
direction: direction/forward
top level: epsE 3 IS
start: 12
end: 14
orientation: inline

3??? EpsE Integration Sequence
type: SequenceAnnotation
persistent identity: annotation1975711
display id: annotation1975711
version: 1
top level: epsE 3 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143006/annotation1975711/range1975711/1

https://synbiohub.org/public/igem/BBa_K143006/annotation1975711/range1975711/1
type: Range
persistent identity: range1975711
display id: range1975711
version: 1
direction: direction/forward
top level: epsE 3 IS
start: 1
end: 462
orientation: inline

amyE 3 IS
type: ComponentDefinition
persistent identity: BBa K143002
display id: BBa_K143002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 3??? Integration Sequence for the amyE locus of B. subtilis
creator: Chris Hirst
created: 2008-08-27T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: Integration sequences allow DNA to be incorporated into the chromosome of a host cell at a specific locus using leading (5') and trailing (3') DNA sequences that are the same as those at a specific locus of the chromosome. The 5' integration sequence can be added to the front of a Biobrick construct and the 3' integration sequence specific for this locus (Part BBa_K143002) to the rear of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The AmyE locus was the first locus used for integration into B.subtilis by Shimotsu and Henner[1] and is still commonly used in vectors such as pDR111[2], pDL[3] and their derivatives. Integration at the AmyE locus removes the ability of B.subtilis to break down starch, which can be assayed with iodine as described by Cutting and Vander-horn[4]. The 5' and 3' integration sequences for the AmyE locus were used to integrate the Imperial 2008 iGEM project primary construct into the B.sutbilis chromosome. References 1. Shimotsu H and Henner DJ. Construction of a single-copy integration vector and its use in analysis of regulation of the trp operon of Bacillus subtilis. Gene 1986; 43(1-2) 85-94. pmid:3019840 2.Nakano S, Kster-Schck E, Grossman AD, and Zuber P. Spx-dependent global transcriptional control is induced by thiol-specific oxidative stress in Bacillus subtilis. Proc Natl Acad Sci U S A 2003 Nov 11; 100(23) 13603-8. doi:10.1073/pnas.2235180100 pmid:14597697 3.Bacillus Genetic Stock Center; www.bgsc.org 4.Cutting, S M.; Vander-Horn, P B. Genetic analysis. In: Harwood C R, Cutting S M. , editors. Molecular biological methods for Bacillus. Chichester, England: John Wiley & Sons, Ltd.; 1990. pp. 27???74.
mutable notes: The AmyE integration sequence was taken from the vector after comparison by BLAST to the B.subtilis chromosome to identify the homologous sequences. The sequence present in both the host chromosome and the plasmid at the 3' end of the gene is the 3' sequence required for integration
mutable provenance: The 3??? integration sequence was taken from the shuttle vector pDR111 which has been used in many studies on B.subtilis, in particular in the studies of transcriptional control[1,2,3] References 1.Shimotsu H and Henner DJ. Construction of a single-copy integration vector and its use in analysis of regulation of the trp operon of Bacillus subtilis. Gene 1986; 43(1-2) 85-94. pmid:3019840. 2.Erwin KN, Nakano S, and Zuber P. Sulfate-dependent repression of genes that function in organosulfur metabolism in Bacillus subtilis requires Spx. J Bacteriol 2005 Jun; 187(12) 4042-9. doi:10.1128/JB.187.12.4042-4049.2005 pmid:15937167 3.Britton RA, Eichenberger P, Gonzalez-Pastor JE, Fawcett P, Monson R, Losick R, and Grossman AD. Genome-wide analysis of the stationary-phase sigma factor (sigma-H) regulon of Bacillus subtilis. J Bacteriol 2002 Sep; 184(17) 4881-90. pmid:12169614
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: 3' AmyE homologous sequence
sequence: https://synbiohub.org/public/igem/BBa_K143002_sequence/1

3' AmyE homologous sequence
type: SequenceAnnotation
persistent identity: annotation1974146
display id: annotation1974146
version: 1
top level: amyE 3 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143002/annotation1974146/range1974146/1

https://synbiohub.org/public/igem/BBa_K143002/annotation1974146/range1974146/1
type: Range
persistent identity: range1974146
display id: range1974146
version: 1
direction: direction/forward
top level: amyE 3 IS
start: 1
end: 1005
orientation: inline

BBa_K1351002
type: ComponentDefinition
persistent identity: BBa K1351002
display id: BBa_K1351002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Chondroitin 4 sulfotransferase-derived peptide binding to NADH Oxidase of S. pneumoniae
creator: Mona Dotzler
created: 2014-10-02T11:00:00Z
modified: 2015-06-01T12:53:20Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Short peptide of 13 amino acids corresponding to amino acids 279 to 290 of the human protein Chondroitin 4 sulfotransferase (UniProt [http://www.uniprot.org/uniprot/Q9NRB3 Q9NRB3]). It has been shown to inhibit NADH oxidase (NOX) mediated binding of ''Streptococcus pneumoniae'' to human A549 cells (Muchnik ''et. al.'', 2013). Displayed on the surface of ''Bacillus subtilis'', it should enable ''B. subtilis'' to bind specifically to ''S. pneumoniae''. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: For generation of the part's nucleotide sequence, the amino acid sequence of the peptide (Muchnik et. al., 2013) was reverse transcribed with regard to the codon usage of Bacillus subtilis. Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
mutable provenance: The part was generated by annealing of artificially synthesized oligonucletides: CSP_ENX_SD_Ngo_precutEP_fwd: AATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG GCGAACCACACATCACTTCCGGCGTCAGCGAGAGAA ACCGGTtaatACTAGTagcggccgCTGCA CSP_SNP_Age_precutEP_rev: GcggccgctACTAGTattaACCGGT TTCTCTCGCTGACGCCGGAAGTGATGTGTGGTTCGC CATGCCGGCttcctccttacTCTAGAagcggccgcG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351002_sequence/1

RBS-spoVG
type: ComponentDefinition
persistent identity: BBa K143021
display id: BBa_K143021
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SpoVG ribosome binding site (RBS) for B. subtilis
creator: James Chappell
created: 2008-09-16T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: true
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Description: SpoVG is an endogenous ribosome binding site from B.subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B.subtilis. Previous research showed that the predicted binding energy of the 16s rRNA to the RBS is -19kcal 1
mutable notes: In order to ensure that the RBS is functional the actual ribosome binding site was maintained and the distance between the RBS and the start codon maintained. In order to conform to the biobrick standard the sequence flanking the RBS had to be changed but the distance between the promoter and RBS, and start codon and RBS was maintained.
mutable provenance: The sequence was taken from a previous research paper [1] and was constructed by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: rbs
sequence: https://synbiohub.org/public/igem/BBa_K143021_sequence/1

rbs
type: SequenceAnnotation
persistent identity: annotation1975997
display id: annotation1975997
version: 1
top level: RBS-spoVG
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K143021/annotation1975997/range1975997/1

https://synbiohub.org/public/igem/BBa_K143021/annotation1975997/range1975997/1
type: Range
persistent identity: range1975997
display id: range1975997
version: 1
direction: direction/forward
top level: RBS-spoVG
start: 1
end: 12
orientation: inline

BBa_K1701005
type: ComponentDefinition
persistent identity: BBa K1701005
display id: BBa_K1701005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: TasA
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2016-02-12T09:11:55Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 4206
owner id: 21319
owning group id: 9
status: status/Planning
bookmark: false
mutable description: In B. subtilis the extracellular matrix is composed of two major components, an EPS and the protein TasA, which polymerizes into amyloid-like fibers.
mutable notes: None
mutable provenance: http://www.ncbi.nlm.nih.gov/nuccore/56068618
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1701005_sequence/1

BBa_K1197004
type: ComponentDefinition
persistent identity: BBa K1197004
display id: BBa_K1197004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS SpoVG + LacI + DT
creator: Alişan Kayab??len
created: 2013-09-19T11:00:00Z
modified: 2015-06-08T11:17:26Z
discontinued: false
dominant: false
group u list: _1511_
m user id: 4206
owner id: 12727
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This is a LacI producing part which is proper for B.subtilis. Any promoter can be added to the downstream of that part to obtain a LacI coding device.
mutable notes: This part is necessary for our kill switch device. To produce LacI in B.subtilis, we designed primers which binds to LacI and have RBS SpoVG sequence as prefix together with RE cut sites.
mutable provenance: This part is obtained from BBa_I732820 part by changing the original RBS sequence with RBS SpoVG via specific primers.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_B0015
component: BBa_K606061
component: BBa_I732100
sequence annotation: BBa_B0015
sequence annotation: BBa_K606061
sequence annotation: BBa_I732100
sequence: https://synbiohub.org/public/igem/BBa_K1197004_sequence/1

BBa_B0015
type: Component
persistent identity: component2357326
display id: component2357326
version: 1
top level: BBa_K1197004
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_K606061
type: Component
persistent identity: component2357318
display id: component2357318
version: 1
top level: BBa_K1197004
access: public
definition: https://synbiohub.org/public/igem/BBa_K606061/1

BBa_I732100
type: Component
persistent identity: component2357319
display id: component2357319
version: 1
top level: BBa_K1197004
access: public
definition: https://synbiohub.org/public/igem/BBa_I732100/1

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2357326
display id: annotation2357326
version: 1
top level: BBa_K1197004
location: https://synbiohub.org/public/igem/BBa_K1197004/annotation2357326/range2357326/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1197004/annotation2357326/range2357326/1
type: Range
persistent identity: range2357326
display id: range2357326
version: 1
direction: direction/reverse
top level: BBa_K1197004
start: 1113
end: 1241
orientation: inline

BBa_K606061
type: SequenceAnnotation
persistent identity: annotation2357318
display id: annotation2357318
version: 1
top level: BBa_K1197004
location: https://synbiohub.org/public/igem/BBa_K1197004/annotation2357318/range2357318/1
component: BBa_K606061

https://synbiohub.org/public/igem/BBa_K1197004/annotation2357318/range2357318/1
type: Range
persistent identity: range2357318
display id: range2357318
version: 1
direction: direction/reverse
top level: BBa_K1197004
start: 1
end: 12
orientation: inline

BBa_I732100
type: SequenceAnnotation
persistent identity: annotation2357319
display id: annotation2357319
version: 1
top level: BBa_K1197004
location: https://synbiohub.org/public/igem/BBa_K1197004/annotation2357319/range2357319/1
component: BBa_I732100

https://synbiohub.org/public/igem/BBa_K1197004/annotation2357319/range2357319/1
type: Range
persistent identity: range2357319
display id: range2357319
version: 1
direction: direction/reverse
top level: BBa_K1197004
start: 19
end: 1104
orientation: inline

Pspac-hy
type: ComponentDefinition
persistent identity: BBa I746665
display id: BBa_I746665
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pspac-hy promoter
creator: Yue Miao
created: 2007-10-23T11:00:00Z
modified: 2015-08-31T04:08:05Z
discontinued: false
dominant: false
experience: experience/None
group u list: _116_
m user id: 0
owner id: 2119
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: There is a G->T point mutation of pSpac at the -1 site, changing the promoter to a stronger one - hence the name pSpac-hy, hy meaning hyper. This promoter drives transcription at rates of about ten times that of the wild type (pSpac) promoter.
mutable notes: NA
mutable provenance: Comes from the pPL82 vector, which is intended as a B. subtilis integrational vector. It is placed in front of the MCS in the plasmid, as it would drive the expression of the gene cloned into the MCS both in B. subtilis and E. coli.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_I746665_sequence/1

BBa_K1351005
type: ComponentDefinition
persistent identity: BBa K1351005
display id: BBa_K1351005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SigD-dependent flagellin promoter (Phag) of Bacillus subtilis
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T08:15:22Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Phag promoter of ''B. subtilis'' flagellin under the control of SigD.
mutable notes: to be filled
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. Phag_ENX_fwd: TGCAGAATTCGCGGCCGCTTCTAGAG ttcacaggaaagaaatttacttgacc Phag_SNP_rev: AGCCTGCAGCGGCCGCTACTAGTA gaatatgttgttaaggcacgtcc
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: transcription start
sequence annotation: -10
sequence annotation: -35
sequence: https://synbiohub.org/public/igem/BBa_K1351005_sequence/1

transcription start
type: SequenceAnnotation
persistent identity: annotation2394212
display id: annotation2394212
version: 1
top level: BBa_K1351005
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1351005/annotation2394212/range2394212/1

https://synbiohub.org/public/igem/BBa_K1351005/annotation2394212/range2394212/1
type: Range
persistent identity: range2394212
display id: range2394212
version: 1
direction: direction/forward
top level: BBa_K1351005
start: 154
end: 155
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2394211
display id: annotation2394211
version: 1
top level: BBa_K1351005
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351005/annotation2394211/range2394211/1

https://synbiohub.org/public/igem/BBa_K1351005/annotation2394211/range2394211/1
type: Range
persistent identity: range2394211
display id: range2394211
version: 1
direction: direction/forward
top level: BBa_K1351005
start: 140
end: 147
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2394210
display id: annotation2394210
version: 1
top level: BBa_K1351005
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351005/annotation2394210/range2394210/1

https://synbiohub.org/public/igem/BBa_K1351005/annotation2394210/range2394210/1
type: Range
persistent identity: range2394210
display id: range2394210
version: 1
direction: direction/forward
top level: BBa_K1351005
start: 121
end: 124
orientation: inline

xyl+efe
type: ComponentDefinition
persistent identity: BBa K1065204
display id: BBa_K1065204
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Efe+Bba_B0015 in BBa_K823024 (pXyl)
creator: Viola Valentini
created: 2013-08-31T11:00:00Z
modified: 2015-05-08T01:08:59Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1373_
m user id: 0
owner id: 15998
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: 2-oxoglutarate oxygenase/decarboxylase is an Ethylene Forming Enzyme (EFE) that catalyze Ethylene biosynthesis from 2-oxoglutarate. This part is in the pXyl vector that has been sent to the Igem UNITN 2013 team from the LMU Munich 2012 team. This part was cloned by the iGEM Trento 2013 team for the creation of an aerobically engineered pathway for the control of fruit ripening. Further information about this part and its characterization can be found in the iGEM Trento 2013 wiki.
mutable notes: ===Design Notes=== The coding sequence was taken from Pseudomonas syringae pv. phaseolicola PK2. We firstly optimized the codons for both B. subtilis and E. coli and then synthesized the gene with an RBS sequence upstream of the start codon. We decided to include in the CDS two restriction sites (NgoMIV and AgeI) in order to allow people to use the Freiburg assembly. GAATTCGCGGCCGCTTCTAGATAAGGAGGAACTACTATGGCCGGCACC... ...TCGACCGGTTAATACTAGTAGCGGCCGCTGCAG
mutable provenance: This enzyme was firstly purified from Pseudomonas Siringae pv. phaseolicola PK2, a 2-oxoglutarate-dependent ethylene producing bacterium [1]. The CDS has been optimized for both E.coli and B.subtilis. We decided to include an RBS sequence too.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1065002
component: BBa_K823024
sequence annotation: BBa_K823024
sequence annotation: BBa_K1065002
sequence: https://synbiohub.org/public/igem/BBa_K1065204_sequence/1

BBa_K1065002
type: Component
persistent identity: component2334259
display id: component2334259
version: 1
top level: xyl+efe
access: public
definition: https://synbiohub.org/public/igem/BBa_K1065002/1

BBa_K823024
type: Component
persistent identity: component2334267
display id: component2334267
version: 1
top level: xyl+efe
access: public
definition: pSBBs4S

BBa_K823024
type: SequenceAnnotation
persistent identity: annotation2334267
display id: annotation2334267
version: 1
top level: xyl+efe
location: https://synbiohub.org/public/igem/BBa_K1065204/annotation2334267/range2334267/1
component: BBa_K823024

https://synbiohub.org/public/igem/BBa_K1065204/annotation2334267/range2334267/1
type: Range
persistent identity: range2334267
display id: range2334267
version: 1
direction: direction/reverse
top level: xyl+efe
start: 1224
end: 6017
orientation: inline

BBa_K1065002
type: SequenceAnnotation
persistent identity: annotation2334259
display id: annotation2334259
version: 1
top level: xyl+efe
location: https://synbiohub.org/public/igem/BBa_K1065204/annotation2334259/range2334259/1
component: BBa_K1065002

https://synbiohub.org/public/igem/BBa_K1065204/annotation2334259/range2334259/1
type: Range
persistent identity: range2334259
display id: range2334259
version: 1
direction: direction/reverse
top level: xyl+efe
start: 1
end: 1215
orientation: inline

BBa_K1351028
type: ComponentDefinition
persistent identity: BBa K1351028
display id: BBa_K1351028
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 1
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:09:54Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This part was generated in a modified version of RFC25, and has the following prefix and suffix: {||prefix with EcoRI, NotI, XbaI, SD and NgoMIV:|GAATTCGCGGCCGCTTCTAGATGGCCGGC|-|suffix with AgeI, SpeI, NotI and PstI:|ACCGGTTAATACTAGTAGCGGCCGCTGCAG|}Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined.
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351028_sequence/1

BBa_K1351004
type: ComponentDefinition
persistent identity: BBa K1351004
display id: BBa_K1351004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SigD-dependent promoter of the LytABC locus (PlytA) of Bacillus subtilis
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T08:15:05Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: PlytA promoter of the ''B. subtilis'' LytABC operon, under the control of SigD (major), the transcripts being predominants at the exponential growth phase, and SigA (minor).
mutable notes: to be filled
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. PlytA_ENX_fwd: TGCAGAATTCGCGGCCGCTTCTAGAG ctcatcctttgcacctcg PlytA_SNP_rev: AGCCTGCAGCGGCCGCTACTAGTA tcattatattttatcgtcaacctatt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -35
sequence annotation: -10
sequence: https://synbiohub.org/public/igem/BBa_K1351004_sequence/1

-35
type: SequenceAnnotation
persistent identity: annotation2394208
display id: annotation2394208
version: 1
top level: BBa_K1351004
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351004/annotation2394208/range2394208/1

https://synbiohub.org/public/igem/BBa_K1351004/annotation2394208/range2394208/1
type: Range
persistent identity: range2394208
display id: range2394208
version: 1
direction: direction/forward
top level: BBa_K1351004
start: 143
end: 146
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2394209
display id: annotation2394209
version: 1
top level: BBa_K1351004
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351004/annotation2394209/range2394209/1

https://synbiohub.org/public/igem/BBa_K1351004/annotation2394209/range2394209/1
type: Range
persistent identity: range2394209
display id: range2394209
version: 1
direction: direction/forward
top level: BBa_K1351004
start: 161
end: 168
orientation: inline

BBa_K1364015
type: ComponentDefinition
persistent identity: BBa K1364015
display id: BBa_K1364015
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg + RFP
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T09:04:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
component: BBa_K823003
component: BBa_K606013
sequence annotation: BBa_K823003
sequence annotation: BBa_K606013
sequence: https://synbiohub.org/public/igem/BBa_K1364015_sequence/1

BBa_K823003
type: Component
persistent identity: component2392954
display id: component2392954
version: 1
top level: BBa_K1364015
access: public
definition: BBa_K823003

BBa_K606013
type: Component
persistent identity: component2392968
display id: component2392968
version: 1
top level: BBa_K1364015
access: public
definition: https://synbiohub.org/public/igem/BBa_K606013/1

BBa_K823003
type: SequenceAnnotation
persistent identity: annotation2392954
display id: annotation2392954
version: 1
top level: BBa_K1364015
location: https://synbiohub.org/public/igem/BBa_K1364015/annotation2392954/range2392954/1
component: BBa_K823003

https://synbiohub.org/public/igem/BBa_K1364015/annotation2392954/range2392954/1
type: Range
persistent identity: range2392954
display id: range2392954
version: 1
direction: direction/reverse
top level: BBa_K1364015
start: 1
end: 237
orientation: inline

BBa_K606013
type: SequenceAnnotation
persistent identity: annotation2392968
display id: annotation2392968
version: 1
top level: BBa_K1364015
location: https://synbiohub.org/public/igem/BBa_K1364015/annotation2392968/range2392968/1
component: BBa_K606013

https://synbiohub.org/public/igem/BBa_K1364015/annotation2392968/range2392968/1
type: Range
persistent identity: range2392968
display id: range2392968
version: 1
direction: direction/reverse
top level: BBa_K1364015
start: 246
end: 1106
orientation: inline

BBa_K1074013
type: ComponentDefinition
persistent identity: BBa K1074013
display id: BBa_K1074013
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: promoter sdpR/I
creator: Changlong Zhao
created: 2013-09-15T11:00:00Z
modified: 2015-06-08T02:58:23Z
discontinued: false
dominant: false
group u list: _1383_
m user id: 4206
owner id: 16001
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This part is a sigma factor A-dependent promotor of the gene sdpR derived from the B.subtilis ,and it contains an operon for the signaling pathway of sdpc,a bacterial toxin of B.subtilis. It's activated as the toxin sdpC existed,while the natural pructrue of the promotor, sdpR/I ,confers immunity to the SdpC toxin. Cells of B. subtilis enter the pathway to sporulate under conditions of nutrient limitation could generate sdpC, then this promotor would be activated. We use this part to overexpress sdpC toxin in spore-forming cells,to build a self-killing system in B.subtilis for safety thinking.
mutable notes: NO
mutable provenance: from the genome of Bacillus subtilis WB800N
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K1074013_sequence/1

BBa_K1351030
type: ComponentDefinition
persistent identity: BBa K1351030
display id: BBa_K1351030
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 3
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:10:10Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351030_sequence/1

BBa_K541501
type: ComponentDefinition
persistent identity: BBa K541501
display id: BBa_K541501
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter Pveg, RBS spoVG and SacB signal peptide for B. subtilis
creator: Cihan TAŞTAN
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 4260
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Constitutive promoter veg(BBa_K143012) coupled to the strong Ribosome Binding Site spoVG(BBa_K143021) from B. subtilis. These parts have been taken from 2008_Imperial_Collage. Pveg is a constitutive promoter that constitutively expresses the P43 protein in B. subtilis. SpoVG is an endogenous ribosome binding site from B. subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B. subtilis. SacB is a signal peptide used in the Sec-SRP (secretory signal recognition particle) pathway by B. subtilis. Signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached) through an appropriate secretory pathway. In the case of the Sec-SRP signal peptide, they direct preproteins from the cytoplasm into the growth medium.
mutable notes: no any design consideration
mutable provenance: All three basic components come from B.subtilis genome
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: BBa_K143053
sequence annotation: rbs
sequence annotation: BBa_K143012
sequence annotation: Sigma A-35
sequence annotation: Sigma A -10
sequence annotation: SacB Signal tag
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K541501_sequence/1

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2123459
display id: annotation2123459
version: 1
top level: BBa_K541501
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123459/range2123459/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123459/range2123459/1
type: Range
persistent identity: range2123459
display id: range2123459
version: 1
direction: direction/reverse
top level: BBa_K541501
start: 1
end: 117
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2123457
display id: annotation2123457
version: 1
top level: BBa_K541501
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123457/range2123457/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123457/range2123457/1
type: Range
persistent identity: range2123457
display id: range2123457
version: 1
direction: direction/forward
top level: BBa_K541501
start: 106
end: 117
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123454
display id: annotation2123454
version: 1
top level: BBa_K541501
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123454/range2123454/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123454/range2123454/1
type: Range
persistent identity: range2123454
display id: range2123454
version: 1
direction: direction/reverse
top level: BBa_K541501
start: 1
end: 97
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2123455
display id: annotation2123455
version: 1
top level: BBa_K541501
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123455/range2123455/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123455/range2123455/1
type: Range
persistent identity: range2123455
display id: range2123455
version: 1
direction: direction/forward
top level: BBa_K541501
start: 63
end: 68
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2123456
display id: annotation2123456
version: 1
top level: BBa_K541501
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123456/range2123456/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123456/range2123456/1
type: Range
persistent identity: range2123456
display id: range2123456
version: 1
direction: direction/forward
top level: BBa_K541501
start: 86
end: 91
orientation: inline

SacB Signal tag
type: SequenceAnnotation
persistent identity: annotation2123460
display id: annotation2123460
version: 1
top level: BBa_K541501
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123460/range2123460/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123460/range2123460/1
type: Range
persistent identity: range2123460
display id: range2123460
version: 1
direction: direction/forward
top level: BBa_K541501
start: 124
end: 219
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123458
display id: annotation2123458
version: 1
top level: BBa_K541501
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541501/annotation2123458/range2123458/1

https://synbiohub.org/public/igem/BBa_K541501/annotation2123458/range2123458/1
type: Range
persistent identity: range2123458
display id: range2123458
version: 1
direction: direction/reverse
top level: BBa_K541501
start: 106
end: 117
orientation: inline

Pctc-gsiB
type: ComponentDefinition
persistent identity: BBa K143058
display id: BBa_K143058
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter ctc and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Sigma B dependant promoter ctc( BBa_K143010 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. In ''B. subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter ctc has been used previously as a read out for the activation of sigma factor B 2. Pctc has been used to take an input of blue light and give a '''Ribosomes per second'''(RiPS) output. To work as a blue light receiver correctly, over-expression of the blue light receptor YtvA ( BBa_K143037 ) is required. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter ctc was obtained from the ''B. subtilis'' genome and published papers1 2. RBS-gsiB were obtained from papers3 and the sequence synthesised by GeneArt
mutable provenance: Pctc-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143020
component: BBa_K143010
sequence annotation: BBa_K143020
sequence annotation: BBa_K143010
sequence: https://synbiohub.org/public/igem/BBa_K143058_sequence/1

BBa_K143020
type: Component
persistent identity: component1978547
display id: component1978547
version: 1
top level: Pctc-gsiB
access: public
definition: RBS-GsiB

BBa_K143010
type: Component
persistent identity: component1978545
display id: component1978545
version: 1
top level: Pctc-gsiB
access: public
definition: Pctc

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1978547
display id: annotation1978547
version: 1
top level: Pctc-gsiB
location: https://synbiohub.org/public/igem/BBa_K143058/annotation1978547/range1978547/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143058/annotation1978547/range1978547/1
type: Range
persistent identity: range1978547
display id: range1978547
version: 1
direction: direction/reverse
top level: Pctc-gsiB
start: 65
end: 75
orientation: inline

BBa_K143010
type: SequenceAnnotation
persistent identity: annotation1978545
display id: annotation1978545
version: 1
top level: Pctc-gsiB
location: https://synbiohub.org/public/igem/BBa_K143058/annotation1978545/range1978545/1
component: BBa_K143010

https://synbiohub.org/public/igem/BBa_K143058/annotation1978545/range1978545/1
type: Range
persistent identity: range1978545
display id: range1978545
version: 1
direction: direction/reverse
top level: Pctc-gsiB
start: 1
end: 56
orientation: inline

BBa_K1228010
type: ComponentDefinition
persistent identity: BBa K1228010
display id: BBa_K1228010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: The device secrete Rabies virus strain ERA glycoprotein in bacillus subtilis
creator: chuan yunli
created: 2013-09-08T11:00:00Z
modified: 2015-05-08T01:09:44Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1542_
m user id: 0
owner id: 17519
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This device can secrete the Rabies virus strain ERA glycoprotein.it contain the Promoter Pveg, RBS spoVG and SacB signal peptide for B.subtilis (BBa_K541501)and the coding sequence of Rabies virus strain ERA glycoprotein(BBa_K12280002).
mutable notes: 3
mutable provenance: no any design consideration
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K1228002
component: BBa_K541501
sequence annotation: BBa_K1228002
sequence annotation: BBa_K541501
sequence: https://synbiohub.org/public/igem/BBa_K1228010_sequence/1

BBa_K1228002
type: Component
persistent identity: component2337467
display id: component2337467
version: 1
top level: BBa_K1228010
access: public
definition: https://synbiohub.org/public/igem/BBa_K1228002/1

BBa_K541501
type: Component
persistent identity: component2337466
display id: component2337466
version: 1
top level: BBa_K1228010
access: public
definition: BBa_K541501

BBa_K1228002
type: SequenceAnnotation
persistent identity: annotation2337467
display id: annotation2337467
version: 1
top level: BBa_K1228010
location: https://synbiohub.org/public/igem/BBa_K1228010/annotation2337467/range2337467/1
component: BBa_K1228002

https://synbiohub.org/public/igem/BBa_K1228010/annotation2337467/range2337467/1
type: Range
persistent identity: range2337467
display id: range2337467
version: 1
direction: direction/reverse
top level: BBa_K1228010
start: 228
end: 1805
orientation: inline

BBa_K541501
type: SequenceAnnotation
persistent identity: annotation2337466
display id: annotation2337466
version: 1
top level: BBa_K1228010
location: https://synbiohub.org/public/igem/BBa_K1228010/annotation2337466/range2337466/1
component: BBa_K541501

https://synbiohub.org/public/igem/BBa_K1228010/annotation2337466/range2337466/1
type: Range
persistent identity: range2337466
display id: range2337466
version: 1
direction: direction/reverse
top level: BBa_K1228010
start: 1
end: 219
orientation: inline

BBa_K1085029
type: ComponentDefinition
persistent identity: BBa K1085029
display id: BBa_K1085029
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: FliZ Strep-tag SpiderSilkSubunitE1
creator: Mirjam Groenewold
created: 2013-09-16T11:00:00Z
modified: 2016-02-10T01:10:14Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: FliZ Strep-tag SpiderSilkSubunitE1
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Strep-Tag
sequence annotation: SS-FlitZ
sequence annotation: E1
sequence: https://synbiohub.org/public/igem/BBa_K1085029_sequence/1

Strep-Tag
type: SequenceAnnotation
persistent identity: annotation2367938
display id: annotation2367938
version: 1
top level: BBa_K1085029
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1085029/annotation2367938/range2367938/1

https://synbiohub.org/public/igem/BBa_K1085029/annotation2367938/range2367938/1
type: Range
persistent identity: range2367938
display id: range2367938
version: 1
direction: direction/forward
top level: BBa_K1085029
start: 88
end: 111
orientation: inline

SS-FlitZ
type: SequenceAnnotation
persistent identity: annotation2367937
display id: annotation2367937
version: 1
top level: BBa_K1085029
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085029/annotation2367937/range2367937/1

https://synbiohub.org/public/igem/BBa_K1085029/annotation2367937/range2367937/1
type: Range
persistent identity: range2367937
display id: range2367937
version: 1
direction: direction/forward
top level: BBa_K1085029
start: 1
end: 81
orientation: inline

E1
type: SequenceAnnotation
persistent identity: annotation2367939
display id: annotation2367939
version: 1
top level: BBa_K1085029
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085029/annotation2367939/range2367939/1

https://synbiohub.org/public/igem/BBa_K1085029/annotation2367939/range2367939/1
type: Range
persistent identity: range2367939
display id: range2367939
version: 1
direction: direction/forward
top level: BBa_K1085029
start: 130
end: 339
orientation: inline

BBa_K1351031
type: ComponentDefinition
persistent identity: BBa K1351031
display id: BBa_K1351031
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 4
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:10:17Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351031_sequence/1

BBa_K1351013
type: ComponentDefinition
persistent identity: BBa K1351013
display id: BBa_K1351013
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaS Subtilin (antimicrobial peptide)
creator: Carolin Kobras
created: 2014-10-06T11:00:00Z
modified: 2016-01-27T02:42:29Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20398
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Subtilin is a lanthionine-containing peptide antibiotic (lantibiotic) active on Gram-positive bacteria. The bactericidal activity of lantibiotics is based on depolarization of energized bacterial cytoplasmic membranes, initiated by the formation of aqueous transmembrane pores. This BioBrick differs in its overhangs from BBa_K1351012.
mutable notes: -
mutable provenance: Bacillus subtilis ATCC6633
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351013_sequence/1

BBa_K302012
type: ComponentDefinition
persistent identity: BBa K302012
display id: BBa_K302012
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: IPTG-inducible filamentous cell formation
creator: Rachel May Boyd, Phil Hall
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _442_
m user id: 0
owner id: 6014
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: ''Bacillus subtilis'' in response to stress such as DNA damage stops the cells from dividing. This is a part of the SOS response initiated by the accumulation of single stranded DNA from DNA damage or stalled replication. Two proteins are vital for this response: RecA and LexA. RecA forms filaments on ssDNA and promotes the autocleavage of LexA. LexA usually represses the SOS operon. ''dinR'' is homologous to lexA in ''E. coli'' and is transcribed in the opposite direction of ''yneA''. ''yneA'' stops the formation of ''ftsZ'' ring indirectly. When ''ftsZ'' forms a 30 subunit ring at the midpoint of the cell, it will contract and cause cell division. By expressing ''yneA'' and inhibiting ''ftsZ'' ring formation, the cells will grow filamentous. By inhibiting cell division, ''yneA'' allows the DNA damage genes to repair the DNA damage before continuing with the cell division cycle. It is hypothesized that ''yneA'' acts through an unknown transmembrane protein to inhibit ''ftsZ'' ring formation; we call this/these unknown components ???Blackbox proteins???. As the evidence shows expression of ''yneA'' leads to filamentation.
mutable notes: none
mutable provenance: Genomic DNA from ''Bacillus subtilis'' -''yneA'' Hyperspankoid from oid and hyperspank
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K302003
component: BBa_K302005
sequence annotation: BBa_K302005
sequence annotation: BBa_K302003
sequence: https://synbiohub.org/public/igem/BBa_K302012_sequence/1

BBa_K302003
type: Component
persistent identity: component2090495
display id: component2090495
version: 1
top level: BBa_K302012
access: public
definition: BBa_K302003

BBa_K302005
type: Component
persistent identity: component2090497
display id: component2090497
version: 1
top level: BBa_K302012
access: public
definition: BBa_K302005

BBa_K302005
type: SequenceAnnotation
persistent identity: annotation2090497
display id: annotation2090497
version: 1
top level: BBa_K302012
location: https://synbiohub.org/public/igem/BBa_K302012/annotation2090497/range2090497/1
component: BBa_K302005

https://synbiohub.org/public/igem/BBa_K302012/annotation2090497/range2090497/1
type: Range
persistent identity: range2090497
display id: range2090497
version: 1
direction: direction/reverse
top level: BBa_K302012
start: 107
end: 460
orientation: inline

BBa_K302003
type: SequenceAnnotation
persistent identity: annotation2090495
display id: annotation2090495
version: 1
top level: BBa_K302012
location: https://synbiohub.org/public/igem/BBa_K302012/annotation2090495/range2090495/1
component: BBa_K302003

https://synbiohub.org/public/igem/BBa_K302012/annotation2090495/range2090495/1
type: Range
persistent identity: range2090495
display id: range2090495
version: 1
direction: direction/reverse
top level: BBa_K302012
start: 1
end: 106
orientation: inline

PcotC
type: ComponentDefinition
persistent identity: BBa K1701002
display id: BBa_K1701002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PcotC
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2015-09-17T09:36:55Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 21319
owner id: 21319
owning group id: 9
status: status/Planning
bookmark: false
mutable description: The PcotC gene is the promoter of the CotC gene, and the CotC gene codes for the protein CotC.
mutable notes: None
mutable provenance: http://www.ncbi.nlm.nih.gov/nuccore/223666305
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K1701002_sequence/1

pTG262-BB
type: ComponentDefinition
persistent identity: BBa I742123
display id: BBa_I742123
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Multi-host vector pTG262 converted to BioBrick vector
creator: Sarah Hollingshead
created: 2007-10-18T11:00:00Z
modified: 2015-08-31T04:08:02Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _123_
m user id: 0
owner id: 1964
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: biobricked version of pTG262 Plasmid has a multi host replication origin and is competant in range of gram positive and gram negative bacteria.
mutable notes: n/a
mutable provenance: We kindly thank Dr Mike Gasson & Dr. Claire Shearman, of the Institute of Food Research in Norwich for generously donating the pTG262 vector.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: neo
sequence annotation: BioBrick prefix
sequence annotation: cat
sequence annotation: BioBrick suffix
sequence annotation: repA
sequence: https://synbiohub.org/public/igem/BBa_I742123_sequence/1

neo
type: SequenceAnnotation
persistent identity: annotation1974396
display id: annotation1974396
version: 1
top level: pTG262-BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_I742123/annotation1974396/range1974396/1

https://synbiohub.org/public/igem/BBa_I742123/annotation1974396/range1974396/1
type: Range
persistent identity: range1974396
display id: range1974396
version: 1
direction: direction/forward
top level: pTG262-BB
start: 3149
end: 3919
orientation: inline

BioBrick prefix
type: SequenceAnnotation
persistent identity: annotation1974398
display id: annotation1974398
version: 1
top level: pTG262-BB
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_I742123/annotation1974398/range1974398/1

https://synbiohub.org/public/igem/BBa_I742123/annotation1974398/range1974398/1
type: Range
persistent identity: range1974398
display id: range1974398
version: 1
direction: direction/forward
top level: pTG262-BB
start: 5543
end: 5564
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation1974397
display id: annotation1974397
version: 1
top level: pTG262-BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_I742123/annotation1974397/range1974397/1

https://synbiohub.org/public/igem/BBa_I742123/annotation1974397/range1974397/1
type: Range
persistent identity: range1974397
display id: range1974397
version: 1
direction: direction/forward
top level: pTG262-BB
start: 4444
end: 5094
orientation: inline

BioBrick suffix
type: SequenceAnnotation
persistent identity: annotation1974394
display id: annotation1974394
version: 1
top level: pTG262-BB
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_I742123/annotation1974394/range1974394/1

https://synbiohub.org/public/igem/BBa_I742123/annotation1974394/range1974394/1
type: Range
persistent identity: range1974394
display id: range1974394
version: 1
direction: direction/forward
top level: pTG262-BB
start: 1
end: 21
orientation: inline

repA
type: SequenceAnnotation
persistent identity: annotation1974395
display id: annotation1974395
version: 1
top level: pTG262-BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_I742123/annotation1974395/range1974395/1

https://synbiohub.org/public/igem/BBa_I742123/annotation1974395/range1974395/1
type: Range
persistent identity: range1974395
display id: range1974395
version: 1
direction: direction/forward
top level: pTG262-BB
start: 1724
end: 2431
orientation: inline

BBa_K302002
type: ComponentDefinition
persistent identity: BBa K302002
display id: BBa_K302002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SR1 antisense RNA (L-arginine)
creator: Steven Woodhouse, Alan Koh
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: SR1 is an untranslated RNA which acts as the antisense to ''ahrC'' mRNA.
mutable notes: No RBS required.
mutable provenance: The sequence was taken from ''The small untranslated RNA SR1 from the Bacillus subtilis genome is involved in the regulation of arginine catabolism'', Heidrich et al. 2006.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000834
role: partType/RNA
sequence annotation: predicted pairing
sequence: https://synbiohub.org/public/igem/BBa_K302002_sequence/1

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077776
display id: annotation2077776
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077776/range2077776/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077776/range2077776/1
type: Range
persistent identity: range2077776
display id: range2077776
version: 1
direction: direction/forward
top level: BBa_K302002
start: 146
end: 151
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077774
display id: annotation2077774
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077774/range2077774/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077774/range2077774/1
type: Range
persistent identity: range2077774
display id: range2077774
version: 1
direction: direction/forward
top level: BBa_K302002
start: 119
end: 127
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077775
display id: annotation2077775
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077775/range2077775/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077775/range2077775/1
type: Range
persistent identity: range2077775
display id: range2077775
version: 1
direction: direction/forward
top level: BBa_K302002
start: 130
end: 135
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077773
display id: annotation2077773
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077773/range2077773/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077773/range2077773/1
type: Range
persistent identity: range2077773
display id: range2077773
version: 1
direction: direction/forward
top level: BBa_K302002
start: 110
end: 116
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077777
display id: annotation2077777
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077777/range2077777/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077777/range2077777/1
type: Range
persistent identity: range2077777
display id: range2077777
version: 1
direction: direction/forward
top level: BBa_K302002
start: 153
end: 158
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077772
display id: annotation2077772
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077772/range2077772/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077772/range2077772/1
type: Range
persistent identity: range2077772
display id: range2077772
version: 1
direction: direction/forward
top level: BBa_K302002
start: 15
end: 19
orientation: inline

predicted pairing
type: SequenceAnnotation
persistent identity: annotation2077778
display id: annotation2077778
version: 1
top level: BBa_K302002
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K302002/annotation2077778/range2077778/1

https://synbiohub.org/public/igem/BBa_K302002/annotation2077778/range2077778/1
type: Range
persistent identity: range2077778
display id: range2077778
version: 1
direction: direction/forward
top level: BBa_K302002
start: 176
end: 181
orientation: inline

SacB-HE
type: ComponentDefinition
persistent identity: BBa K143039
display id: BBa_K143039
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SacB-Human Elastin (EP20-24-24) Fusion Protein
creator: Qin Qi
created: 2008-09-16T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3429
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Elastin is a polymeric extracellular matrix protein found in tissues that require the ability to extend and recoil. Examples of elastin containing tissues include arteries, lungs, ligaments and skin. Construct EP20-24-24 for human elastin polypeptide consists of distinct exons which code for alternating hydrophobic regions and crosslinking domains from the human elastin polypeptide gene 1. Under appropriate conditions of temperature and ionic strength, elastin polypeptide undergoes a self-aggregation process known as coacervation. Coacervation is usually induced by an increase in temperature and causes the protein to separate from the solution as a second phase. Unlike most proteins which undergo denaturation when the temperature of the solution increases, elastin polypeptides become more ordered through coacervation 2. SacB is a signal peptide used in the Sec-SRP (secretory signal recognition particle) pathway by ''B. subtilis''. Signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached) through an appropriate secretory pathway. In the case of the Sec-SRP signal peptide, they direct preproteins from the cytoplasm into the growth medium. SacB has been successfully used in the secretion of heterologous proteins such as acid-stable α-amylase, cystatin and interleukin-3 by B.subtilis 3.
mutable notes: BioBrick standard was applied to the SacB-Human Elastin(EP20-24-24) Fusion Protein.
mutable provenance: All exons in EP20-24-24 are derived from the human elastin polypeptide gene. EP20-24-24 was used to study the effect of various combinations of exons on coacervation of elastin polypeptide. SacB was identified from the initial part of certain preprotein genes that utilises the the Sec-SRP secretory pathway 4. Both components were synthesised as a fusin protein by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: SacB
sequence annotation: Human Elastin (EP20-24-24)
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K143039_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation1992731
display id: annotation1992731
version: 1
top level: SacB-HE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143039/annotation1992731/range1992731/1

https://synbiohub.org/public/igem/BBa_K143039/annotation1992731/range1992731/1
type: Range
persistent identity: range1992731
display id: range1992731
version: 1
direction: direction/forward
top level: SacB-HE
start: 694
end: 696
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992730
display id: annotation1992730
version: 1
top level: SacB-HE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143039/annotation1992730/range1992730/1

https://synbiohub.org/public/igem/BBa_K143039/annotation1992730/range1992730/1
type: Range
persistent identity: range1992730
display id: range1992730
version: 1
direction: direction/forward
top level: SacB-HE
start: 697
end: 699
orientation: inline

SacB
type: SequenceAnnotation
persistent identity: annotation1976019
display id: annotation1976019
version: 1
top level: SacB-HE
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143039/annotation1976019/range1976019/1

https://synbiohub.org/public/igem/BBa_K143039/annotation1976019/range1976019/1
type: Range
persistent identity: range1976019
display id: range1976019
version: 1
direction: direction/forward
top level: SacB-HE
start: 1
end: 96
orientation: inline

Human Elastin (EP20-24-24)
type: SequenceAnnotation
persistent identity: annotation1992732
display id: annotation1992732
version: 1
top level: SacB-HE
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143039/annotation1992732/range1992732/1

https://synbiohub.org/public/igem/BBa_K143039/annotation1992732/range1992732/1
type: Range
persistent identity: range1992732
display id: range1992732
version: 1
direction: direction/forward
top level: SacB-HE
start: 97
end: 693
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992729
display id: annotation1992729
version: 1
top level: SacB-HE
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143039/annotation1992729/range1992729/1

https://synbiohub.org/public/igem/BBa_K143039/annotation1992729/range1992729/1
type: Range
persistent identity: range1992729
display id: range1992729
version: 1
direction: direction/forward
top level: SacB-HE
start: 1
end: 3
orientation: inline

BBa_K541925
type: ComponentDefinition
persistent identity: BBa K541925
display id: BBa_K541925
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Multi-host vector pTG262 converted to BioBrick vector wtih LALF protein and LipA signal peptide
creator: Mustafa Elitok
created: 2011-09-20T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: Horseshoe crab
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
component: BBa_I742123
component: BBa_K541525
sequence annotation: BBa_I742123
sequence annotation: BBa_K541525
sequence: https://synbiohub.org/public/igem/BBa_K541925_sequence/1

BBa_I742123
type: Component
persistent identity: component2136664
display id: component2136664
version: 1
top level: BBa_K541925
access: public
definition: pTG262-BB

BBa_K541525
type: Component
persistent identity: component2136675
display id: component2136675
version: 1
top level: BBa_K541925
access: public
definition: BBa_K541525

BBa_I742123
type: SequenceAnnotation
persistent identity: annotation2136664
display id: annotation2136664
version: 1
top level: BBa_K541925
location: https://synbiohub.org/public/igem/BBa_K541925/annotation2136664/range2136664/1
component: BBa_I742123

https://synbiohub.org/public/igem/BBa_K541925/annotation2136664/range2136664/1
type: Range
persistent identity: range2136664
display id: range2136664
version: 1
direction: direction/reverse
top level: BBa_K541925
start: 1
end: 5564
orientation: inline

BBa_K541525
type: SequenceAnnotation
persistent identity: annotation2136675
display id: annotation2136675
version: 1
top level: BBa_K541925
location: https://synbiohub.org/public/igem/BBa_K541925/annotation2136675/range2136675/1
component: BBa_K541525

https://synbiohub.org/public/igem/BBa_K541925/annotation2136675/range2136675/1
type: Range
persistent identity: range2136675
display id: range2136675
version: 1
direction: direction/reverse
top level: BBa_K541925
start: 5573
end: 6115
orientation: inline

BBa_K1399003
type: ComponentDefinition
persistent identity: BBa K1399003
display id: BBa_K1399003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RFP from Discosoma striata (coral) with DAS-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: Mutant RFP from Discosoma striata (coral) (see part BBa_E1010) with added DAS-ssrA degradation tag (part BBa_M0052). The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYADAS and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The DAS tag is reported to have low affinity to ClpX thus its mediated degradation very much depends on the concentration of SspB (ClpX mediator).[1] However, be aware that exact protein degradation rate is influenced by multiple other factors: ClpXP and ClpAP protease concentrations, protein stability, Km of binding to the protease, temperature [3]. References: [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to RFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (AAV in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: RFP comes from part BBa_E1010, tag sequence was obtained from part BBa_M0052, but same tag was also used in paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: RFP
sequence annotation: DAS-ssrA tag
sequence annotation: stop
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399003_sequence/1

RFP
type: SequenceAnnotation
persistent identity: annotation2383904
display id: annotation2383904
version: 1
top level: BBa_K1399003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399003/annotation2383904/range2383904/1

https://synbiohub.org/public/igem/BBa_K1399003/annotation2383904/range2383904/1
type: Range
persistent identity: range2383904
display id: range2383904
version: 1
direction: direction/forward
top level: BBa_K1399003
start: 4
end: 675
orientation: inline

DAS-ssrA tag
type: SequenceAnnotation
persistent identity: annotation2383905
display id: annotation2383905
version: 1
top level: BBa_K1399003
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399003/annotation2383905/range2383905/1

https://synbiohub.org/public/igem/BBa_K1399003/annotation2383905/range2383905/1
type: Range
persistent identity: range2383905
display id: range2383905
version: 1
direction: direction/forward
top level: BBa_K1399003
start: 676
end: 708
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383907
display id: annotation2383907
version: 1
top level: BBa_K1399003
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399003/annotation2383907/range2383907/1

https://synbiohub.org/public/igem/BBa_K1399003/annotation2383907/range2383907/1
type: Range
persistent identity: range2383907
display id: range2383907
version: 1
direction: direction/forward
top level: BBa_K1399003
start: 712
end: 714
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383906
display id: annotation2383906
version: 1
top level: BBa_K1399003
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399003/annotation2383906/range2383906/1

https://synbiohub.org/public/igem/BBa_K1399003/annotation2383906/range2383906/1
type: Range
persistent identity: range2383906
display id: range2383906
version: 1
direction: direction/forward
top level: BBa_K1399003
start: 709
end: 711
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383903
display id: annotation2383903
version: 1
top level: BBa_K1399003
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399003/annotation2383903/range2383903/1

https://synbiohub.org/public/igem/BBa_K1399003/annotation2383903/range2383903/1
type: Range
persistent identity: range2383903
display id: range2383903
version: 1
direction: direction/forward
top level: BBa_K1399003
start: 1
end: 3
orientation: inline

BBa_K302016
type: ComponentDefinition
persistent identity: BBa K302016
display id: BBa_K302016
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Swarming
creator: Harsh Sheth, Alan Koh, Steven Woodhouse
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: Swarming
mutable notes: None.
mutable provenance: Composite
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_G0000
component: BBa_K143053
component: BBa_K143021
component: BBa_B0014
component: BBa_K302010
component: BBa_K302011
sequence annotation: BBa_K302011
sequence annotation: BBa_K143053
sequence annotation: BBa_K302010
sequence annotation: BBa_G0000
sequence annotation: BBa_B0014
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K302016_sequence/1

BBa_G0000
type: Component
persistent identity: component2227538
display id: component2227538
version: 1
top level: BBa_K302016
access: public
definition: https://synbiohub.org/public/igem/BBa_G0000/1

BBa_G0000
type: Component
persistent identity: component2227533
display id: component2227533
version: 1
top level: BBa_K302016
access: public
definition: https://synbiohub.org/public/igem/BBa_G0000/1

BBa_K143053
type: Component
persistent identity: component2227532
display id: component2227532
version: 1
top level: BBa_K302016
access: public
definition: Pveg-spoVG

BBa_K143021
type: Component
persistent identity: component2227537
display id: component2227537
version: 1
top level: BBa_K302016
access: public
definition: RBS-spoVG

BBa_B0014
type: Component
persistent identity: component2227547
display id: component2227547
version: 1
top level: BBa_K302016
access: public
definition: https://synbiohub.org/public/igem/BBa_B0014/1

BBa_K302010
type: Component
persistent identity: component2227535
display id: component2227535
version: 1
top level: BBa_K302016
access: public
definition: BBa_K302010

BBa_K302011
type: Component
persistent identity: component2227540
display id: component2227540
version: 1
top level: BBa_K302016
access: public
definition: BBa_K302011

BBa_K302011
type: SequenceAnnotation
persistent identity: annotation2227540
display id: annotation2227540
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227540/range2227540/1
component: BBa_K302011

https://synbiohub.org/public/igem/BBa_K302016/annotation2227540/range2227540/1
type: Range
persistent identity: range2227540
display id: range2227540
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 820
end: 1251
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2227532
display id: annotation2227532
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227532/range2227532/1
component: BBa_K143053

https://synbiohub.org/public/igem/BBa_K302016/annotation2227532/range2227532/1
type: Range
persistent identity: range2227532
display id: range2227532
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 1
end: 117
orientation: inline

BBa_K302010
type: SequenceAnnotation
persistent identity: annotation2227535
display id: annotation2227535
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227535/range2227535/1
component: BBa_K302010

https://synbiohub.org/public/igem/BBa_K302016/annotation2227535/range2227535/1
type: Range
persistent identity: range2227535
display id: range2227535
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 124
end: 801
orientation: inline

BBa_G0000
type: SequenceAnnotation
persistent identity: annotation2227538
display id: annotation2227538
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227538/range2227538/1
component: BBa_G0000

https://synbiohub.org/public/igem/BBa_K302016/annotation2227538/range2227538/1
type: Range
persistent identity: range2227538
display id: range2227538
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 814
end: 819
orientation: inline

BBa_B0014
type: SequenceAnnotation
persistent identity: annotation2227547
display id: annotation2227547
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227547/range2227547/1
component: BBa_B0014

https://synbiohub.org/public/igem/BBa_K302016/annotation2227547/range2227547/1
type: Range
persistent identity: range2227547
display id: range2227547
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 1252
end: 1346
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2227537
display id: annotation2227537
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227537/range2227537/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K302016/annotation2227537/range2227537/1
type: Range
persistent identity: range2227537
display id: range2227537
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 802
end: 813
orientation: inline

BBa_G0000
type: SequenceAnnotation
persistent identity: annotation2227533
display id: annotation2227533
version: 1
top level: BBa_K302016
location: https://synbiohub.org/public/igem/BBa_K302016/annotation2227533/range2227533/1
component: BBa_G0000

https://synbiohub.org/public/igem/BBa_K302016/annotation2227533/range2227533/1
type: Range
persistent identity: range2227533
display id: range2227533
version: 1
direction: direction/reverse
top level: BBa_K302016
start: 118
end: 123
orientation: inline

BBa_K302008
type: ComponentDefinition
persistent identity: BBa K302008
display id: BBa_K302008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaE
creator: Philip Hall
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6345
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: One of three proteins from B. Subtilis which form a membrane transporter that removes subtilin from the membrane, preventing it from forming pores and killing the cells.
mutable notes: Overlaps with ''spaF'' at the 5'
mutable provenance: Gene bank
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spaF
sequence annotation: spaE
sequence: https://synbiohub.org/public/igem/BBa_K302008_sequence/1

spaF
type: SequenceAnnotation
persistent identity: annotation2077655
display id: annotation2077655
version: 1
top level: BBa_K302008
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302008/annotation2077655/range2077655/1

https://synbiohub.org/public/igem/BBa_K302008/annotation2077655/range2077655/1
type: Range
persistent identity: range2077655
display id: range2077655
version: 1
direction: direction/forward
top level: BBa_K302008
start: 1
end: 7
orientation: inline

spaE
type: SequenceAnnotation
persistent identity: annotation2077654
display id: annotation2077654
version: 1
top level: BBa_K302008
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302008/annotation2077654/range2077654/1

https://synbiohub.org/public/igem/BBa_K302008/annotation2077654/range2077654/1
type: Range
persistent identity: range2077654
display id: range2077654
version: 1
direction: direction/forward
top level: BBa_K302008
start: 1
end: 756
orientation: inline

BBa_K541026
type: ComponentDefinition
persistent identity: BBa K541026
display id: BBa_K541026
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin 1A (SacB) and LALF (LipA) protein for B.subtilis
creator: Mustafa Elitok
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli. On the other hand, Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: LALF from horseshoe crab, Reflectin from Cephalopod, promoter-RBS from B.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K143021
component: BBa_K143012
sequence annotation: BBa_K143012
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K541026_sequence/1

BBa_K143021
type: Component
persistent identity: component2123604
display id: component2123604
version: 1
top level: BBa_K541026
access: public
definition: RBS-spoVG

BBa_K143021
type: Component
persistent identity: component2123614
display id: component2123614
version: 1
top level: BBa_K541026
access: public
definition: RBS-spoVG

BBa_K143012
type: Component
persistent identity: component2123609
display id: component2123609
version: 1
top level: BBa_K541026
access: public
definition: Pveg

BBa_K143012
type: Component
persistent identity: component2123601
display id: component2123601
version: 1
top level: BBa_K541026
access: public
definition: Pveg

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123609
display id: annotation2123609
version: 1
top level: BBa_K541026
location: https://synbiohub.org/public/igem/BBa_K541026/annotation2123609/range2123609/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K541026/annotation2123609/range2123609/1
type: Range
persistent identity: range2123609
display id: range2123609
version: 1
direction: direction/reverse
top level: BBa_K541026
start: 987
end: 1083
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123601
display id: annotation2123601
version: 1
top level: BBa_K541026
location: https://synbiohub.org/public/igem/BBa_K541026/annotation2123601/range2123601/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K541026/annotation2123601/range2123601/1
type: Range
persistent identity: range2123601
display id: range2123601
version: 1
direction: direction/reverse
top level: BBa_K541026
start: 1
end: 97
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123614
display id: annotation2123614
version: 1
top level: BBa_K541026
location: https://synbiohub.org/public/igem/BBa_K541026/annotation2123614/range2123614/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K541026/annotation2123614/range2123614/1
type: Range
persistent identity: range2123614
display id: range2123614
version: 1
direction: direction/reverse
top level: BBa_K541026
start: 1092
end: 1103
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123604
display id: annotation2123604
version: 1
top level: BBa_K541026
location: https://synbiohub.org/public/igem/BBa_K541026/annotation2123604/range2123604/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K541026/annotation2123604/range2123604/1
type: Range
persistent identity: range2123604
display id: range2123604
version: 1
direction: direction/reverse
top level: BBa_K541026
start: 106
end: 117
orientation: inline

YtvA
type: ComponentDefinition
persistent identity: BBa K143037
display id: BBa_K143037
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: YtvA Blue Light Receptor for B.subtilis
creator: James Chappell
created: 2008-09-14T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: YtvA is a blue light receptor endogenously found in ''B.subtilis''. Activation of the YtvA light receptor activates the mild stress response pathway, accumulating in sigma B activation. Previous research has shown that sigma B dependent transcription in response to blue light light exposure can be enhanced by the over expression of the YtvA receptor 1. We over expressed YtvA to enhance the transcriptional output of sigma B promoters in response to blue light.
mutable notes: Biobrick standard was applied to the YtvA sequence.
mutable provenance: The part was designed using the sequence from the B.subtilis genome. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: YtvA Blue Light Receptor for B.subtilis
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K143037_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation1992716
display id: annotation1992716
version: 1
top level: YtvA
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143037/annotation1992716/range1992716/1

https://synbiohub.org/public/igem/BBa_K143037/annotation1992716/range1992716/1
type: Range
persistent identity: range1992716
display id: range1992716
version: 1
direction: direction/forward
top level: YtvA
start: 784
end: 786
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992715
display id: annotation1992715
version: 1
top level: YtvA
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143037/annotation1992715/range1992715/1

https://synbiohub.org/public/igem/BBa_K143037/annotation1992715/range1992715/1
type: Range
persistent identity: range1992715
display id: range1992715
version: 1
direction: direction/forward
top level: YtvA
start: 787
end: 789
orientation: inline

YtvA Blue Light Receptor for B.subtilis
type: SequenceAnnotation
persistent identity: annotation1976412
display id: annotation1976412
version: 1
top level: YtvA
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143037/annotation1976412/range1976412/1

https://synbiohub.org/public/igem/BBa_K143037/annotation1976412/range1976412/1
type: Range
persistent identity: range1976412
display id: range1976412
version: 1
direction: direction/forward
top level: YtvA
start: 1
end: 783
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992714
display id: annotation1992714
version: 1
top level: YtvA
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143037/annotation1992714/range1992714/1

https://synbiohub.org/public/igem/BBa_K143037/annotation1992714/range1992714/1
type: Range
persistent identity: range1992714
display id: range1992714
version: 1
direction: direction/forward
top level: YtvA
start: 1
end: 3
orientation: inline

BBa_K1197010
type: ComponentDefinition
persistent identity: BBa K1197010
display id: BBa_K1197010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg (K143012) + RBS (SpoVG) + RFP + DT
creator: Emre İlpars
created: 2013-09-21T11:00:00Z
modified: 2015-06-08T11:41:51Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1511_
m user id: 4206
owner id: 12422
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: .
mutable notes: .
mutable provenance: .
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K143012
component: BBa_K606013
sequence annotation: BBa_K143012
sequence annotation: BBa_K606013
sequence: https://synbiohub.org/public/igem/BBa_K1197010_sequence/1

BBa_K143012
type: Component
persistent identity: component2358047
display id: component2358047
version: 1
top level: BBa_K1197010
access: public
definition: Pveg

BBa_K606013
type: Component
persistent identity: component2358061
display id: component2358061
version: 1
top level: BBa_K1197010
access: public
definition: https://synbiohub.org/public/igem/BBa_K606013/1

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2358047
display id: annotation2358047
version: 1
top level: BBa_K1197010
location: https://synbiohub.org/public/igem/BBa_K1197010/annotation2358047/range2358047/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K1197010/annotation2358047/range2358047/1
type: Range
persistent identity: range2358047
display id: range2358047
version: 1
direction: direction/reverse
top level: BBa_K1197010
start: 1
end: 97
orientation: inline

BBa_K606013
type: SequenceAnnotation
persistent identity: annotation2358061
display id: annotation2358061
version: 1
top level: BBa_K1197010
location: https://synbiohub.org/public/igem/BBa_K1197010/annotation2358061/range2358061/1
component: BBa_K606013

https://synbiohub.org/public/igem/BBa_K1197010/annotation2358061/range2358061/1
type: Range
persistent identity: range2358061
display id: range2358061
version: 1
direction: direction/reverse
top level: BBa_K1197010
start: 106
end: 966
orientation: inline

BBa_K1085006
type: ComponentDefinition
persistent identity: BBa K1085006
display id: BBa_K1085006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SpiderSilkSubunitN2
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:07:20Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitN2). SubunitN2 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to minimize the number of restriction sites, and the tetrary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spidersilk subunit N2
sequence: https://synbiohub.org/public/igem/BBa_K1085006_sequence/1

spidersilk subunit N2
type: SequenceAnnotation
persistent identity: annotation2339055
display id: annotation2339055
version: 1
top level: BBa_K1085006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085006/annotation2339055/range2339055/1

https://synbiohub.org/public/igem/BBa_K1085006/annotation2339055/range2339055/1
type: Range
persistent identity: range2339055
display id: range2339055
version: 1
direction: direction/forward
top level: BBa_K1085006
start: 1
end: 129
orientation: inline

D4E1
type: ComponentDefinition
persistent identity: BBa K1364003
display id: BBa_K1364003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS - Antifungal D4E1 - Double terminator
creator: Jourdan Camille
created: 2014-09-24T11:00:00Z
modified: 2016-02-03T10:04:36Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: D4E1 is a linear synthetic peptide of 17 amino acids which has shown to have antifungal activities by complexing with a sterol present in conidial wall of a variety of fungi. This part is composed of a RBS (K780002 spoVG), the open reading frame of D4E1 and a double terminator (B0015). This part was optimized for the expression and its secretion in Bacillus subtilis.
mutable notes: The coding sequence of D4E1 is flanked on the N-terminal end with a signal peptide (amyE signal peptide) followed by a pro peptide, cleaved during the secretion process.
mutable provenance: De Lucca AJ,??Bland JM,??Grimm C,??Jacks TJ,??Cary JW,??Jaynes JM,??Cleveland TE,??Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1. Can J Microbiol.??1998 Jun;44(6):514-20.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Translational Unit
role: SO:0000804
sequence annotation: D4E1
sequence annotation: Signal Peptide
sequence annotation: BBa_B0015
sequence annotation: Pro Peptide
sequence annotation: BBa_K780002 strong RBS
sequence: https://synbiohub.org/public/igem/BBa_K1364003_sequence/1

D4E1
type: SequenceAnnotation
persistent identity: annotation2386386
display id: annotation2386386
version: 1
top level: D4E1
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1364003/annotation2386386/range2386386/1

https://synbiohub.org/public/igem/BBa_K1364003/annotation2386386/range2386386/1
type: Range
persistent identity: range2386386
display id: range2386386
version: 1
direction: direction/forward
top level: D4E1
start: 140
end: 192
orientation: inline

Signal Peptide
type: SequenceAnnotation
persistent identity: annotation2386384
display id: annotation2386384
version: 1
top level: D4E1
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364003/annotation2386384/range2386384/1

https://synbiohub.org/public/igem/BBa_K1364003/annotation2386384/range2386384/1
type: Range
persistent identity: range2386384
display id: range2386384
version: 1
direction: direction/forward
top level: D4E1
start: 17
end: 97
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2386387
display id: annotation2386387
version: 1
top level: D4E1
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1364003/annotation2386387/range2386387/1

https://synbiohub.org/public/igem/BBa_K1364003/annotation2386387/range2386387/1
type: Range
persistent identity: range2386387
display id: range2386387
version: 1
direction: direction/forward
top level: D4E1
start: 194
end: 322
orientation: inline

Pro Peptide
type: SequenceAnnotation
persistent identity: annotation2386385
display id: annotation2386385
version: 1
top level: D4E1
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364003/annotation2386385/range2386385/1

https://synbiohub.org/public/igem/BBa_K1364003/annotation2386385/range2386385/1
type: Range
persistent identity: range2386385
display id: range2386385
version: 1
direction: direction/forward
top level: D4E1
start: 98
end: 139
orientation: inline

BBa_K780002 strong RBS
type: SequenceAnnotation
persistent identity: annotation2386383
display id: annotation2386383
version: 1
top level: D4E1
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1364003/annotation2386383/range2386383/1

https://synbiohub.org/public/igem/BBa_K1364003/annotation2386383/range2386383/1
type: Range
persistent identity: range2386383
display id: range2386383
version: 1
direction: direction/reverse
top level: D4E1
start: 1
end: 16
orientation: inline

RBS-GsiB
type: ComponentDefinition
persistent identity: BBa K143020
display id: BBa_K143020
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GsiB ribosome binding site (RBS) for B. subtilis
creator: James Chappell
created: 2008-09-14T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: GsiB is an endogenous ribosome binding site from ''B.subtilis''. The sequence of the gsiB ribosome binding site is '''AAAGGAGG''' which is complementary to the sequence '''UUUCCUCC''' from the 3' region of the 16s rRNA from ''B.subtilis''. GsiB is an endogenous ribosome binding site (RBS) from ''B.subtilis''. The sequence of the gsiB ribosome binding site is '''AAAGGAGG''' which is complementary to the sequence '''UUUCCUCC''' from the 3' region of the 16s rRNA from ''B.subtilis''. Previous research showed that the predicted binding energy of the 16s rRNA to the RBS is -9.3kcal.
mutable notes: In order to ensure that the RBS is functional the actual ribosome binding site was maintained and the distance between the RBS and the start codon maintained. In order to conform to the biobrick standard the sequence flanking the RBS had to be changed but the distance between the promoter and RBS, and start codon and RBS was maintained.
mutable provenance: The sequence was taken from a previous research paper [1] and was constructed by Geneart
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: rbs
sequence: https://synbiohub.org/public/igem/BBa_K143020_sequence/1

rbs
type: SequenceAnnotation
persistent identity: annotation1975872
display id: annotation1975872
version: 1
top level: RBS-GsiB
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K143020/annotation1975872/range1975872/1

https://synbiohub.org/public/igem/BBa_K143020/annotation1975872/range1975872/1
type: Range
persistent identity: range1975872
display id: range1975872
version: 1
direction: direction/forward
top level: RBS-GsiB
start: 2
end: 8
orientation: inline

PVeg-gsiB
type: ComponentDefinition
persistent identity: BBa K143052
display id: BBa_K143052
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter Pveg and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Constitutive promoter veg( BBa_K143012 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. Pveg-gsiB can be used in the context of a Polymerases per second (PoPS) output generator '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of Pveg was obtained from the DBTBS1 and RBS-gsiB were obtained from papers2 and the sequence synthesised by GeneArt
mutable provenance: Pveg-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143020
component: BBa_K143012
sequence annotation: BBa_K143012
sequence annotation: BBa_K143020
sequence: https://synbiohub.org/public/igem/BBa_K143052_sequence/1

BBa_K143020
type: Component
persistent identity: component1981494
display id: component1981494
version: 1
top level: PVeg-gsiB
access: public
definition: RBS-GsiB

BBa_K143012
type: Component
persistent identity: component1981492
display id: component1981492
version: 1
top level: PVeg-gsiB
access: public
definition: Pveg

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1981492
display id: annotation1981492
version: 1
top level: PVeg-gsiB
location: https://synbiohub.org/public/igem/BBa_K143052/annotation1981492/range1981492/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143052/annotation1981492/range1981492/1
type: Range
persistent identity: range1981492
display id: range1981492
version: 1
direction: direction/reverse
top level: PVeg-gsiB
start: 1
end: 97
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1981494
display id: annotation1981494
version: 1
top level: PVeg-gsiB
location: https://synbiohub.org/public/igem/BBa_K143052/annotation1981494/range1981494/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143052/annotation1981494/range1981494/1
type: Range
persistent identity: range1981494
display id: range1981494
version: 1
direction: direction/reverse
top level: PVeg-gsiB
start: 106
end: 116
orientation: inline

BBa_K174012
type: ComponentDefinition
persistent identity: BBa K174012
display id: BBa_K174012
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: sleB, Bacillus subtilis germination gene with RBS
creator: The Newcastle 2009 iGEM team
created: 2009-10-13T11:00:00Z
modified: 2015-05-08T01:10:58Z
discontinued: false
dominant: false
experience: experience/None
group u list: _277_
m user id: 0
owner id: 3942
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: ''sleB'' encodes for a spore cortex-lytic enzyme. This enzyme responds germination triggered by L-alanine which is the most universal germinant for spores. It has been shown that B. subtilis mutants with inactivated ''sleB'' gene were not able to germinate (1). Hence by regulating this gene in ''sleB'' mutant ''B. subtilis'' cells, germination rate can be contolled.
mutable notes: It has been added as a part with its own natural RBS.
mutable provenance: ''B. subtilis''
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: RBS
sequence annotation: SleB CDS
sequence: https://synbiohub.org/public/igem/BBa_K174012_sequence/1

RBS
type: SequenceAnnotation
persistent identity: annotation2039826
display id: annotation2039826
version: 1
top level: BBa_K174012
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K174012/annotation2039826/range2039826/1

https://synbiohub.org/public/igem/BBa_K174012/annotation2039826/range2039826/1
type: Range
persistent identity: range2039826
display id: range2039826
version: 1
direction: direction/forward
top level: BBa_K174012
start: 1
end: 5
orientation: inline

SleB CDS
type: SequenceAnnotation
persistent identity: annotation2039827
display id: annotation2039827
version: 1
top level: BBa_K174012
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K174012/annotation2039827/range2039827/1

https://synbiohub.org/public/igem/BBa_K174012/annotation2039827/range2039827/1
type: Range
persistent identity: range2039827
display id: range2039827
version: 1
direction: direction/forward
top level: BBa_K174012
start: 15
end: 932
orientation: inline

pSac-Cm_B
type: ComponentDefinition
persistent identity: BBa K1185004
display id: BBa_K1185004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Integration vector for Bacillus subtilis derived from pSac-Cm
creator: Vincent Leonardo
created: 2013-10-03T11:00:00Z
modified: 2015-05-08T01:09:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1498_
m user id: 0
owner id: 16794
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This plasmid was derived from pSac-Cm by insertion of biobrick compatible restriction sites (prefixes and suffixes), a terminator (BBa_B0015) after the suffixes sequences, and red fluorescent protein sequence (RFP) in between the prefix and suffix in its multiple cloning sites (MCS). New biobricks can be inserted into this vector by replacement of the RFP biobrick, and selection of the white colonies. This backbone has a multi host replication origin and replicates in E. coli. The plasmid is designed to integrate a cloned insert into the B. subtilis chromosome via double recombination between plasmid and chromosomal sacA sequences, and in order to check for integration a simple Phenol Red Sucrose test can be perform, if sacA is no longer functional, they will remain ph7, if they are still able to digest sucrose their pH will be under 5.
mutable notes: We found that that the integration plasmid that groningen send to the registry were unable to integrate in B. subtilis. This is due to the high number of mutations in the sacA integration region.
mutable provenance: Groningen iGEM 2012 team
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: B0015
sequence annotation: bla
sequence annotation: 'sacA
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_K1185004_sequence/1

B0015
type: SequenceAnnotation
persistent identity: annotation2367613
display id: annotation2367613
version: 1
top level: pSac-Cm_B
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185004/annotation2367613/range2367613/1

https://synbiohub.org/public/igem/BBa_K1185004/annotation2367613/range2367613/1
type: Range
persistent identity: range2367613
display id: range2367613
version: 1
direction: direction/forward
top level: pSac-Cm_B
start: 23
end: 151
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2367615
display id: annotation2367615
version: 1
top level: pSac-Cm_B
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1185004/annotation2367615/range2367615/1

https://synbiohub.org/public/igem/BBa_K1185004/annotation2367615/range2367615/1
type: Range
persistent identity: range2367615
display id: range2367615
version: 1
direction: direction/forward
top level: pSac-Cm_B
start: 1306
end: 2176
orientation: inline

'sacA
type: SequenceAnnotation
persistent identity: annotation2367616
display id: annotation2367616
version: 1
top level: pSac-Cm_B
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1185004/annotation2367616/range2367616/1

https://synbiohub.org/public/igem/BBa_K1185004/annotation2367616/range2367616/1
type: Range
persistent identity: range2367616
display id: range2367616
version: 1
direction: direction/forward
top level: pSac-Cm_B
start: 3167
end: 3922
orientation: inline

'sacA
type: SequenceAnnotation
persistent identity: annotation2367614
display id: annotation2367614
version: 1
top level: pSac-Cm_B
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1185004/annotation2367614/range2367614/1

https://synbiohub.org/public/igem/BBa_K1185004/annotation2367614/range2367614/1
type: Range
persistent identity: range2367614
display id: range2367614
version: 1
direction: direction/forward
top level: pSac-Cm_B
start: 167
end: 970
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2367617
display id: annotation2367617
version: 1
top level: pSac-Cm_B
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1185004/annotation2367617/range2367617/1

https://synbiohub.org/public/igem/BBa_K1185004/annotation2367617/range2367617/1
type: Range
persistent identity: range2367617
display id: range2367617
version: 1
direction: direction/forward
top level: pSac-Cm_B
start: 4231
end: 4894
orientation: inline

BBa_K1351037
type: ComponentDefinition
persistent identity: BBa K1351037
display id: BBa_K1351037
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P2-promoter
creator: Nikolai Peschek
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:13:59Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20162
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Quorum sensing dependant promotor (AIP II). Regulated by phosphorylated AgrA. Contains four AgrA binding sites upstream.
mutable notes: Mutated illegal restriction sites. These sites have been mutated with regard to the codon usage of Bacillus subtilis.
mutable provenance: artificially synthesized
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: AgrA box (binding site)
sequence annotation: -10
sequence annotation: -35
sequence: https://synbiohub.org/public/igem/BBa_K1351037_sequence/1

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421818
display id: annotation2421818
version: 1
top level: BBa_K1351037
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421818/range2421818/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421818/range2421818/1
type: Range
persistent identity: range2421818
display id: range2421818
version: 1
direction: direction/forward
top level: BBa_K1351037
start: 114
end: 121
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2421820
display id: annotation2421820
version: 1
top level: BBa_K1351037
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421820/range2421820/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421820/range2421820/1
type: Range
persistent identity: range2421820
display id: range2421820
version: 1
direction: direction/forward
top level: BBa_K1351037
start: 156
end: 161
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421817
display id: annotation2421817
version: 1
top level: BBa_K1351037
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421817/range2421817/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421817/range2421817/1
type: Range
persistent identity: range2421817
display id: range2421817
version: 1
direction: direction/forward
top level: BBa_K1351037
start: 97
end: 100
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421815
display id: annotation2421815
version: 1
top level: BBa_K1351037
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421815/range2421815/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421815/range2421815/1
type: Range
persistent identity: range2421815
display id: range2421815
version: 1
direction: direction/reverse
top level: BBa_K1351037
start: 22
end: 29
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2421819
display id: annotation2421819
version: 1
top level: BBa_K1351037
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421819/range2421819/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421819/range2421819/1
type: Range
persistent identity: range2421819
display id: range2421819
version: 1
direction: direction/forward
top level: BBa_K1351037
start: 130
end: 136
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421816
display id: annotation2421816
version: 1
top level: BBa_K1351037
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351037/annotation2421816/range2421816/1

https://synbiohub.org/public/igem/BBa_K1351037/annotation2421816/range2421816/1
type: Range
persistent identity: range2421816
display id: range2421816
version: 1
direction: direction/forward
top level: BBa_K1351037
start: 44
end: 51
orientation: inline

GFP
type: ComponentDefinition
persistent identity: BBa E0040
display id: BBa_E0040
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: green fluorescent protein derived from jellyfish Aequeora victoria wild-type GFP (SwissProt: P42212
creator: jcbraff
created: 2004-09-29T11:00:00Z
modified: 2016-01-26T02:09:38Z
discontinued: false
dominant: true
experience: experience/Works
group u list: _11_1_
m user id: 4206
owner id: 61
owning group id: 7
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: GFP (mut3b) [note that this part does not have a barcode]
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: GFP protein
sequence: https://synbiohub.org/public/igem/BBa_E0040_sequence/1

GFP protein
type: SequenceAnnotation
persistent identity: annotation1934520
display id: annotation1934520
version: 1
top level: GFP
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_E0040/annotation1934520/range1934520/1

https://synbiohub.org/public/igem/BBa_E0040/annotation1934520/range1934520/1
type: Range
persistent identity: range1934520
display id: range1934520
version: 1
direction: direction/forward
top level: GFP
start: 1
end: 720
orientation: inline

XylR
type: ComponentDefinition
persistent identity: BBa K143036
display id: BBa_K143036
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Xylose operon regulatory protein
creator: Chris Hirst
created: 2008-09-15T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: true
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Transcription is regulated by proteins which bind operator sequences around the transcription start site. These proteins can positively affect transcription (activators) or negatively affect transcription (reppresors). Some repressor proteins can be inactivted however by addition of an inducer, such as xylose. XylR if the regulator protein for the Xylose operon in ''B. subtilis''#1 and is responsible for ensuring that in the absence of xylose the xylose metabolism proteins are not expressed. Though endogenous to ''B. subtilis'', to minimise the leakage of a xylose inducible promoter XylR should be over-expressed. In the presence of xylose, the XylR tetramer is unable to bind DNA and so transcription resumes. It must be noted that in all ''B. subtilis'' strains that do not have the Xylose operon knocked out '''the xylose inducer will gradually be metabolised by the host''' XylR was used in conjunction with the '''Xylose operon promoter''' (<bbpart>BBa_K143014<bbpart>) and acted as an input adaptor for a '''Polymerases per second''' (POPS) output
mutable notes: The XylR protein was identified in the genome using its Genbank entry#2 and NCBI's sequence viewer and PCR primers designed from the sequence. Biobrick prefix and suffix sequences were added and the gene cloned by PCR with Pfu DNA polymerase
mutable provenance: The XylR protein was PCR cloned form the ''B. subtilis'' genome using Pfu DNA polymerase
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Xylose operon regulatory protein
sequence annotation: stop
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K143036_sequence/1

Xylose operon regulatory protein
type: SequenceAnnotation
persistent identity: annotation1975975
display id: annotation1975975
version: 1
top level: XylR
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143036/annotation1975975/range1975975/1

https://synbiohub.org/public/igem/BBa_K143036/annotation1975975/range1975975/1
type: Range
persistent identity: range1975975
display id: range1975975
version: 1
direction: direction/forward
top level: XylR
start: 1
end: 1050
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992712
display id: annotation1992712
version: 1
top level: XylR
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143036/annotation1992712/range1992712/1

https://synbiohub.org/public/igem/BBa_K143036/annotation1992712/range1992712/1
type: Range
persistent identity: range1992712
display id: range1992712
version: 1
direction: direction/forward
top level: XylR
start: 1051
end: 1053
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992711
display id: annotation1992711
version: 1
top level: XylR
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143036/annotation1992711/range1992711/1

https://synbiohub.org/public/igem/BBa_K143036/annotation1992711/range1992711/1
type: Range
persistent identity: range1992711
display id: range1992711
version: 1
direction: direction/forward
top level: XylR
start: 1
end: 3
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992713
display id: annotation1992713
version: 1
top level: XylR
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143036/annotation1992713/range1992713/1

https://synbiohub.org/public/igem/BBa_K143036/annotation1992713/range1992713/1
type: Range
persistent identity: range1992713
display id: range1992713
version: 1
direction: direction/forward
top level: XylR
start: 1054
end: 1056
orientation: inline

BBa_K911009
type: ComponentDefinition
persistent identity: BBa K911009
display id: BBa_K911009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Fluorescent ratiometric construct for standardizing promoter output
creator: Fai Tsang
created: 2012-09-23T11:00:00Z
modified: 2015-05-08T01:13:45Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1176_
m user id: 0
owner id: 13194
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: Biosensors may give unreliable outputs. This is due to differences in the number and state of the cells from test to test. By including an internal control signal, to which another inducible signal may be normalised, the reliability and reproducibility of a sensor may be significantly improved. The construct that uses an inducible eCFP (E0020) and a constitutively expressed eYFP (E0030) under the control of the constitutive promoter Pveg (K143012). The construct is optimized in both E. coli and B. subtilis, through the use of B. subtilis ribosome binding sites GsiB (K143020) and SpoVG (K143021).
mutable notes: This biobrick is best used with a shuttle vector that can function in both E. coli and B. subtilis, which should also have preferably different antibiotic markers in E. coli and B. subtilis.
mutable provenance: This biobrick is composed entirely of existing biobricks: GsiB (K143020), eCFP (E0020), terminator (B0015), Pveg + SpoVG (K143053), eYFP (E0030) and a second terminator (B0010). It was constructed first on the E. coli- B. subitilis shuttle vector pJS130, then moved onto pSB1C3 for submission.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
component: BBa_B0010
component: BBa_K143020
component: BBa_E0020
component: BBa_K143053
component: BBa_E0030
component: BBa_B0015
sequence annotation: BBa_E0020
sequence annotation: BBa_K143020
sequence annotation: BBa_E0030
sequence annotation: BBa_K143053
sequence annotation: BBa_B0010
sequence annotation: BBa_B0015
sequence: https://synbiohub.org/public/igem/BBa_K911009_sequence/1

BBa_B0010
type: Component
persistent identity: component2196320
display id: component2196320
version: 1
top level: BBa_K911009
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_K143020
type: Component
persistent identity: component2196304
display id: component2196304
version: 1
top level: BBa_K911009
access: public
definition: RBS-GsiB

BBa_E0020
type: Component
persistent identity: component2196305
display id: component2196305
version: 1
top level: BBa_K911009
access: public
definition: https://synbiohub.org/public/igem/BBa_E0020/1

BBa_K143053
type: Component
persistent identity: component2196318
display id: component2196318
version: 1
top level: BBa_K911009
access: public
definition: Pveg-spoVG

BBa_E0030
type: Component
persistent identity: component2196319
display id: component2196319
version: 1
top level: BBa_K911009
access: public
definition: https://synbiohub.org/public/igem/BBa_E0030/1

BBa_B0015
type: Component
persistent identity: component2196312
display id: component2196312
version: 1
top level: BBa_K911009
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_E0020
type: SequenceAnnotation
persistent identity: annotation2196305
display id: annotation2196305
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196305/range2196305/1
component: BBa_E0020

https://synbiohub.org/public/igem/BBa_K911009/annotation2196305/range2196305/1
type: Range
persistent identity: range2196305
display id: range2196305
version: 1
direction: direction/reverse
top level: BBa_K911009
start: 18
end: 740
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation2196304
display id: annotation2196304
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196304/range2196304/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K911009/annotation2196304/range2196304/1
type: Range
persistent identity: range2196304
display id: range2196304
version: 1
direction: direction/reverse
top level: BBa_K911009
start: 1
end: 11
orientation: inline

BBa_E0030
type: SequenceAnnotation
persistent identity: annotation2196319
display id: annotation2196319
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196319/range2196319/1
component: BBa_E0030

https://synbiohub.org/public/igem/BBa_K911009/annotation2196319/range2196319/1
type: Range
persistent identity: range2196319
display id: range2196319
version: 1
direction: direction/reverse
top level: BBa_K911009
start: 1009
end: 1731
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2196318
display id: annotation2196318
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196318/range2196318/1
component: BBa_K143053

https://synbiohub.org/public/igem/BBa_K911009/annotation2196318/range2196318/1
type: Range
persistent identity: range2196318
display id: range2196318
version: 1
direction: direction/reverse
top level: BBa_K911009
start: 886
end: 1002
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation2196320
display id: annotation2196320
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196320/range2196320/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K911009/annotation2196320/range2196320/1
type: Range
persistent identity: range2196320
display id: range2196320
version: 1
direction: direction/forward
top level: BBa_K911009
start: 1740
end: 1819
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2196312
display id: annotation2196312
version: 1
top level: BBa_K911009
location: https://synbiohub.org/public/igem/BBa_K911009/annotation2196312/range2196312/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K911009/annotation2196312/range2196312/1
type: Range
persistent identity: range2196312
display id: range2196312
version: 1
direction: direction/reverse
top level: BBa_K911009
start: 749
end: 877
orientation: inline

BBa_K090502
type: ComponentDefinition
persistent identity: BBa K090502
display id: BBa_K090502
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Gram-Positive Xylose-Inducible Promoter
creator: Daniel Goodman
created: 2008-10-27T12:00:00Z
modified: 2015-06-09T09:03:37Z
discontinued: false
dominant: false
group u list: _188_
m user id: 4206
owner id: 3501
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is a Xylose-inducible promoter for use with gram-positive organisms. It requires a downstream gram-positive ribosomal binding site and coding sequence to function. We only have experience using this part in B. subtilis, but it should function in most gram-positive organisms. It has not been tested and will most likely not work in E. coli.
mutable notes: We used the following PCR primers to extract the part, sans biobrick ends: Forward: TTCATGAAAAACTAAAAAAAATATTG Reverse: TATGTCATATTGTAAGTAAGTTGCAC
mutable provenance: We PCRed this part out of the pSG1154 gram-positive shuttle vector, acquired from the Bacillus Genetic Stock Center (bgsc.org), catalog number ECE153.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -35
sequence annotation: Xylose Repressor Binding Region
sequence annotation: -10
sequence: https://synbiohub.org/public/igem/BBa_K090502_sequence/1

-35
type: SequenceAnnotation
persistent identity: annotation1991895
display id: annotation1991895
version: 1
top level: BBa_K090502
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K090502/annotation1991895/range1991895/1

https://synbiohub.org/public/igem/BBa_K090502/annotation1991895/range1991895/1
type: Range
persistent identity: range1991895
display id: range1991895
version: 1
direction: direction/forward
top level: BBa_K090502
start: 30
end: 35
orientation: inline

Xylose Repressor Binding Region
type: SequenceAnnotation
persistent identity: annotation1991917
display id: annotation1991917
version: 1
top level: BBa_K090502
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K090502/annotation1991917/range1991917/1

https://synbiohub.org/public/igem/BBa_K090502/annotation1991917/range1991917/1
type: Range
persistent identity: range1991917
display id: range1991917
version: 1
direction: direction/forward
top level: BBa_K090502
start: 68
end: 91
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation1991916
display id: annotation1991916
version: 1
top level: BBa_K090502
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K090502/annotation1991916/range1991916/1

https://synbiohub.org/public/igem/BBa_K090502/annotation1991916/range1991916/1
type: Range
persistent identity: range1991916
display id: range1991916
version: 1
direction: direction/forward
top level: BBa_K090502
start: 53
end: 58
orientation: inline

BBa_K1085016
type: ComponentDefinition
persistent identity: BBa K1085016
display id: BBa_K1085016
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon SpiderSilkSubunitE1 SpiderSilkSubunitE2
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2015-06-02T12:16:32Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for two parts of the spider silk proteins (SubunitE1 and SubunitE2) with a Bacillus Subtilis ribosome binding site (RBS) infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. SubunitE1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites. SubunitE2 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to minimize the number of restriction sites, and the tetrary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence: https://synbiohub.org/public/igem/BBa_K1085016_sequence/1

BBa_K1452000
type: ComponentDefinition
persistent identity: BBa K1452000
display id: BBa_K1452000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pos/neg selection (Bacillus)
creator: Keoni Gandall
created: 2014-11-02T12:00:00Z
modified: 2015-06-01T02:28:12Z
discontinued: false
dominant: false
group u list: _1830_
m user id: 4206
owner id: 14964
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This is a positive/negative selection cassette for Bacillus. If flanked by Bacillus integration sites and integration sites for any chosen DNA, that DNA can be integrated into Bacillus and then the selection cassette can be integrated over by whatever DNA you chose.
mutable notes: ***the mazF toxin is unstable in plasmids without the mazE antitoxin***
mutable provenance: http://www.bgsc.org/viewdetail.php?bgscid=ECE194&Search=pDGieF http://www.ncbi.nlm.nih.gov/pubmed/16714443
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K302033
sequence annotation: BBa_K302033
sequence: https://synbiohub.org/public/igem/BBa_K1452000_sequence/1

BBa_K302033
type: Component
persistent identity: component2430141
display id: component2430141
version: 1
top level: BBa_K1452000
access: public
definition: BBa_K302033

BBa_K302033
type: SequenceAnnotation
persistent identity: annotation2430141
display id: annotation2430141
version: 1
top level: BBa_K1452000
location: https://synbiohub.org/public/igem/BBa_K1452000/annotation2430141/range2430141/1
component: BBa_K302033

https://synbiohub.org/public/igem/BBa_K1452000/annotation2430141/range2430141/1
type: Range
persistent identity: range2430141
display id: range2430141
version: 1
direction: direction/reverse
top level: BBa_K1452000
start: 1
end: 339
orientation: inline

BBa_K1351027
type: ComponentDefinition
persistent identity: BBa K1351027
display id: BBa_K1351027
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Signal peptide of B. subtilis minor autolysin LytE
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:56:24Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Signal peptide (amino acids 1 to 25) of ''Bacillus subtilis'' minor autolysin LytE (probable peptidoglycan endopeptidase, Uniprot [http://www.uniprot.org/uniprot/P54421 P54421]). Targets proteins for secretion via the Sec pathway (Tjalsma ''et. al.'', 2000). This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: none
mutable provenance: This part was generated by amplification from BioBrick [http://parts.igem.org/Part:BBa_K1351007 BBa_K1351007] with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. LytE_ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC ATGAAAAAGCAAATCATTACAGCTACGACAGC LyteSP_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT TGCAGATGCCGCTCCTGCAAATAAC
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351027_sequence/1

BBa_K302001
type: ComponentDefinition
persistent identity: BBa K302001
display id: BBa_K302001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: yneA coding sequence
creator: Rachel May
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _442_
m user id: 0
owner id: 6014
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: ''Bacillus subtilis'' in response to stress such as DNA damage stops the cells from dividing. This is a part of the SOS response initiated by the accumulation of single stranded DNA from DNA damage or stalled replication. Two proteins are vital for this response: RecA and LexA. RecA forms filaments on ssDNA and promotes the autocleavage of LexA. LexA usually represses the SOS operon. ''dinR'' is homologous to ''lexA'' in ''E. coli'' and is transcribed in the opposite direction of ''yneA''. ''yneA'' stops the formation of ''ftsZ'' ring indirectly. When ''ftsZ'' forms a 30 subunit ring at the midpoint of the cell, it will contract and cause cell division. By expressing ''yneA'' and inhibiting ''ftsZ'' ring formation, the cells will grow filamentous. By inhibiting cell division, yneA allows the DNA damage genes to repair the DNA damage before continuing with the cell division cycle. It is hypothesized that yneA acts through an unknown transmembrane protein to inhibit ftsZ ring formation; we call this/these unknown components ???Blackbox proteins???. As the evidence shows expression of yneA leads to filamentation.
mutable notes: None.
mutable provenance: Genomic DNA ''Bacillus subtilis''
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: double stop codon
sequence: https://synbiohub.org/public/igem/BBa_K302001_sequence/1

double stop codon
type: SequenceAnnotation
persistent identity: annotation2091504
display id: annotation2091504
version: 1
top level: BBa_K302001
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302001/annotation2091504/range2091504/1

https://synbiohub.org/public/igem/BBa_K302001/annotation2091504/range2091504/1
type: Range
persistent identity: range2091504
display id: range2091504
version: 1
direction: direction/forward
top level: BBa_K302001
start: 316
end: 321
orientation: inline

BBa_K1937001
type: ComponentDefinition
persistent identity: BBa K1937001
display id: BBa_K1937001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBsOK-mini, a small replicative plasmid for Bacillus subtilis
creator: Brice Enjalbert
created: 2016-10-12T11:00:00Z
modified: 2016-10-18T09:20:09Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2404_
m user id: 21497
owner id: 21497
owning group id: 9
status: status/Planning
bookmark: false
mutable description: Part: BBa_K1937001 (pSBBsOK-mini) (Chassis E. coli, carrier plasmid pSB1C3, part destined for use in Bacillus subtilis) Length: 5857 bp This part is an expression vector for Bacillus subtilis. It is replicative both in E.coli and B.subtilis. It has an ampicillin resistance for cloning in E.coli and kanamycin resistance for selection in B. subtilis. This BioBrick is a part developed by the Toulouse 2016 iGEM team (http://2016.igem.org/Team:Toulouse_France) We successfully transformed E. coli and selected clones on ampicillin. Likewise, we successfully transformed B. subtilis and selected clones on kanamycine. The plasmid sequence has been entirely verified by sequencing. The capacity to sub-clone in this new backbone has been demonstrated (part BBa_K1937004, BBa_K1937006, BBa_K1937008 and BBa_K1937010).
mutable notes: The pSBBsOK-mini is a reduction of the pSBBsOK -P plasmid (BBa_K1351040). Its size is only 5827 pb compared to the entire pSBBsOK -P which is 9358 pb long.
mutable provenance: The part was created by amplifying a 5827pb fragment from the pSBBsOK -P plasmid (BBa_K1351040) using primers pSBBsOK Forward (5??? ctgctggctagcTACTAGTAGCGGCCGCTGCAGGCGCAACGCAATTAATGTGAGTTAGG) and pSBBsOK Reverse (5??? gacgacgctagcCTCTAGAAGCGGCCGCGAATTcAAATCAGCAAGGGACAGGTAG). The PCR product was digested by NheI and ligated on himself. The resulting plasmid is a lighter shuttle plasmid (E. coli and B. subtilis) with all the properties of the iGEM pSBA13 plasmid (prefix, suffix, verification sequences???).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: Verification reverse (VR) primer binding site
sequence annotation: Kanamycin resistance (B. subtilis)
sequence annotation: Prefix
sequence annotation: Ampicillin resistance (E. coli)
sequence annotation: ColE1 origin (E. coli)
sequence annotation: Bleomycin resistance (B. subtilis)
sequence annotation: Verification forward (VF2) primer binding site
sequence annotation: repU (Bacillus subtilis origin)
sequence annotation: Suffixe
sequence: https://synbiohub.org/public/igem/BBa_K1937001_sequence/1

Verification reverse (VR) primer binding site
type: SequenceAnnotation
persistent identity: annotation2497223
display id: annotation2497223
version: 1
top level: BBa_K1937001
role: feature/primer binding
role: SO:0005850
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497223/range2497223/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497223/range2497223/1
type: Range
persistent identity: range2497223
display id: range2497223
version: 1
direction: direction/reverse
top level: BBa_K1937001
start: 685
end: 704
orientation: inline

Kanamycin resistance (B. subtilis)
type: SequenceAnnotation
persistent identity: annotation2497208
display id: annotation2497208
version: 1
top level: BBa_K1937001
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497208/range2497208/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497208/range2497208/1
type: Range
persistent identity: range2497208
display id: range2497208
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 4209
end: 4979
orientation: inline

Prefix
type: SequenceAnnotation
persistent identity: annotation2497209
display id: annotation2497209
version: 1
top level: BBa_K1937001
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497209/range2497209/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497209/range2497209/1
type: Range
persistent identity: range2497209
display id: range2497209
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 257
end: 278
orientation: inline

Ampicillin resistance (E. coli)
type: SequenceAnnotation
persistent identity: annotation2497206
display id: annotation2497206
version: 1
top level: BBa_K1937001
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497206/range2497206/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497206/range2497206/1
type: Range
persistent identity: range2497206
display id: range2497206
version: 1
direction: direction/reverse
top level: BBa_K1937001
start: 1564
end: 2223
orientation: inline

ColE1 origin (E. coli)
type: SequenceAnnotation
persistent identity: annotation2497207
display id: annotation2497207
version: 1
top level: BBa_K1937001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497207/range2497207/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497207/range2497207/1
type: Range
persistent identity: range2497207
display id: range2497207
version: 1
direction: direction/reverse
top level: BBa_K1937001
start: 784
end: 1466
orientation: inline

Bleomycin resistance (B. subtilis)
type: SequenceAnnotation
persistent identity: annotation2497205
display id: annotation2497205
version: 1
top level: BBa_K1937001
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497205/range2497205/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497205/range2497205/1
type: Range
persistent identity: range2497205
display id: range2497205
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 5202
end: 5600
orientation: inline

Verification forward (VF2) primer binding site
type: SequenceAnnotation
persistent identity: annotation2497222
display id: annotation2497222
version: 1
top level: BBa_K1937001
role: feature/primer binding
role: SO:0005850
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497222/range2497222/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497222/range2497222/1
type: Range
persistent identity: range2497222
display id: range2497222
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 2546
end: 2565
orientation: inline

repU (Bacillus subtilis origin)
type: SequenceAnnotation
persistent identity: annotation2497221
display id: annotation2497221
version: 1
top level: BBa_K1937001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497221/range2497221/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497221/range2497221/1
type: Range
persistent identity: range2497221
display id: range2497221
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 3045
end: 4049
orientation: inline

Suffixe
type: SequenceAnnotation
persistent identity: annotation2497210
display id: annotation2497210
version: 1
top level: BBa_K1937001
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1937001/annotation2497210/range2497210/1

https://synbiohub.org/public/igem/BBa_K1937001/annotation2497210/range2497210/1
type: Range
persistent identity: range2497210
display id: range2497210
version: 1
direction: direction/forward
top level: BBa_K1937001
start: 285
end: 305
orientation: inline

BBa_K541502
type: ComponentDefinition
persistent identity: BBa K541502
display id: BBa_K541502
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter Pveg, RBS spoVG and LipA signal peptide for B. subtilis
creator: Fazilet Guler
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 8463
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Constitutive promoter veg(BBa_K143012) coupled to the strong Ribosome Binding Site spoVG(BBa_K143021) from B. subtilis. These parts have been taken from 2008_Imperial_Collage. Pveg is a constitutive promoter that constitutively expresses the P43 protein in B. subtilis. SpoVG is an endogenous ribosome binding site from B. subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B. subtilis. LipA is a signal peptide from the B. subtilis genome. In general, signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached)through an appropriate secretory pathway[3]. LipA has been successfully used in the secretion of heterologous proteins such as cutinase by B. subtilis.
mutable notes: optimized for b.subtilis
mutable provenance: b.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: LipA signal peptide
sequence annotation: rbs
sequence annotation: Sigma A-35
sequence annotation: Sigma A -10
sequence annotation: BBa_K143012
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K541502_sequence/1

LipA signal peptide
type: SequenceAnnotation
persistent identity: annotation2123494
display id: annotation2123494
version: 1
top level: BBa_K541502
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123494/range2123494/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123494/range2123494/1
type: Range
persistent identity: range2123494
display id: range2123494
version: 1
direction: direction/forward
top level: BBa_K541502
start: 124
end: 225
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2123492
display id: annotation2123492
version: 1
top level: BBa_K541502
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123492/range2123492/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123492/range2123492/1
type: Range
persistent identity: range2123492
display id: range2123492
version: 1
direction: direction/forward
top level: BBa_K541502
start: 106
end: 117
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2123489
display id: annotation2123489
version: 1
top level: BBa_K541502
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123489/range2123489/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123489/range2123489/1
type: Range
persistent identity: range2123489
display id: range2123489
version: 1
direction: direction/forward
top level: BBa_K541502
start: 63
end: 68
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2123490
display id: annotation2123490
version: 1
top level: BBa_K541502
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123490/range2123490/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123490/range2123490/1
type: Range
persistent identity: range2123490
display id: range2123490
version: 1
direction: direction/forward
top level: BBa_K541502
start: 86
end: 91
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123491
display id: annotation2123491
version: 1
top level: BBa_K541502
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123491/range2123491/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123491/range2123491/1
type: Range
persistent identity: range2123491
display id: range2123491
version: 1
direction: direction/reverse
top level: BBa_K541502
start: 1
end: 97
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123493
display id: annotation2123493
version: 1
top level: BBa_K541502
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541502/annotation2123493/range2123493/1

https://synbiohub.org/public/igem/BBa_K541502/annotation2123493/range2123493/1
type: Range
persistent identity: range2123493
display id: range2123493
version: 1
direction: direction/reverse
top level: BBa_K541502
start: 106
end: 117
orientation: inline

BBa_K302015
type: ComponentDefinition
persistent identity: BBa K302015
display id: BBa_K302015
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: IPTG-inducible urea/urease
creator: Steven Woodhouse, Alan Koh, Harsh Sheth
created: 2010-08-12T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: Urease
mutable notes: .
mutable provenance: .
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K302014
component: BBa_K302013
sequence annotation: BBa_K302013
sequence annotation: BBa_K302014
sequence: https://synbiohub.org/public/igem/BBa_K302015_sequence/1

BBa_K302014
type: Component
persistent identity: component2226688
display id: component2226688
version: 1
top level: BBa_K302015
access: public
definition: BBa_K302014

BBa_K302013
type: Component
persistent identity: component2226672
display id: component2226672
version: 1
top level: BBa_K302015
access: public
definition: BBa_K302013

BBa_K302013
type: SequenceAnnotation
persistent identity: annotation2226672
display id: annotation2226672
version: 1
top level: BBa_K302015
location: https://synbiohub.org/public/igem/BBa_K302015/annotation2226672/range2226672/1
component: BBa_K302013

https://synbiohub.org/public/igem/BBa_K302015/annotation2226672/range2226672/1
type: Range
persistent identity: range2226672
display id: range2226672
version: 1
direction: direction/reverse
top level: BBa_K302015
start: 1
end: 407
orientation: inline

BBa_K302014
type: SequenceAnnotation
persistent identity: annotation2226688
display id: annotation2226688
version: 1
top level: BBa_K302015
location: https://synbiohub.org/public/igem/BBa_K302015/annotation2226688/range2226688/1
component: BBa_K302014

https://synbiohub.org/public/igem/BBa_K302015/annotation2226688/range2226688/1
type: Range
persistent identity: range2226688
display id: range2226688
version: 1
direction: direction/reverse
top level: BBa_K302015
start: 408
end: 1538
orientation: inline

BBa_K134900
type: ComponentDefinition
persistent identity: BBa K134900
display id: BBa_K134900
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP
creator: Ileana de la Fuente Colmenares
created: 2009-10-17T11:00:00Z
modified: 2015-05-08T01:10:01Z
discontinued: false
dominant: false
experience: experience/None
group u list: _260_363_
m user id: 0
owner id: 3667
owning group id: 9
sample status: No part sequence
status: status/Planning
bookmark: false
mutable description: this is the gfp protein
mutable notes: GFPmut3* has a couple of mutations from wtGFP - S2R and S65G and S72A. Emerald and EGFP have S65T and multiple other mutations. The S2R mutation should have no effect.
mutable provenance: 1. Elowitz MB and Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 2000 Jan 20; 403(6767) 335-8. doi:10.1038/35002125 pmid:10659856. PubMed HubMed [Cormack]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804

BBa_K143078
type: ComponentDefinition
persistent identity: BBa K143078
display id: BBa_K143078
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P43-spoVG GFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: GFP gene under expresson of the P43 promoter and spoVG RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the P43 promoter and spoVG RBS (Combined part BBa_K143051 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, GFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter P43 and RBS spoVG were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the P43-spoVG part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143075
component: BBa_K143072
sequence annotation: BBa_K143072
sequence annotation: BBa_K143075
sequence: https://synbiohub.org/public/igem/BBa_K143078_sequence/1

BBa_K143075
type: Component
persistent identity: component2232864
display id: component2232864
version: 1
top level: BBa_K143078
access: public
definition: BBa_K143075

BBa_K143072
type: Component
persistent identity: component2232853
display id: component2232853
version: 1
top level: BBa_K143078
access: public
definition: BBa_K143072

BBa_K143072
type: SequenceAnnotation
persistent identity: annotation2232853
display id: annotation2232853
version: 1
top level: BBa_K143078
location: https://synbiohub.org/public/igem/BBa_K143078/annotation2232853/range2232853/1
component: BBa_K143072

https://synbiohub.org/public/igem/BBa_K143078/annotation2232853/range2232853/1
type: Range
persistent identity: range2232853
display id: range2232853
version: 1
direction: direction/reverse
top level: BBa_K143078
start: 1
end: 1493
orientation: inline

BBa_K143075
type: SequenceAnnotation
persistent identity: annotation2232864
display id: annotation2232864
version: 1
top level: BBa_K143078
location: https://synbiohub.org/public/igem/BBa_K143078/annotation2232864/range2232864/1
component: BBa_K143075

https://synbiohub.org/public/igem/BBa_K143078/annotation2232864/range2232864/1
type: Range
persistent identity: range2232864
display id: range2232864
version: 1
direction: direction/reverse
top level: BBa_K143078
start: 1500
end: 3366
orientation: inline

BBa_K1228008
type: ComponentDefinition
persistent identity: BBa K1228008
display id: BBa_K1228008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 38aa with T1 terminator and Constitutive promoter veg
creator: Zhang SW
created: 2013-09-08T11:00:00Z
modified: 2015-05-08T01:09:43Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1542_
m user id: 0
owner id: 17767
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Human lysozyme (hLZ), the actual protein in breast milk,exhibits microbicidal activity to various degrees against several bacterial strains.The HLH peptide and its N-terminal helix (H1) were significantly the most potent bactericidal to Gram-positive and Gram-negative bacteria.Evidence shows that HLH peptide and its N-terminal helix (H1) kill bacteria by crossing the outer membrane of Gram-negative bacteria via self-promoted uptake and are able to dissipate the membrane potential-dependent respiration of Gram-positive bacteria.
mutable notes: 38aa doesn't contain any promoter or terminator.
mutable provenance: 38aa comes from Human lysozyme.It was synthesized in Wuhan Bio-Broad Co.Ltd
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: B0010
sequence annotation: Sigma A -10
sequence annotation: BBa_K541501
sequence annotation: Sigma A-35
sequence annotation: BBa_K1228000
sequence annotation: rbs
sequence annotation: BBa_K143021
sequence annotation: SacB Signal tag
sequence annotation: BBa_K143053
sequence annotation: BBa_K731722
sequence annotation: BBa_K143012
sequence: https://synbiohub.org/public/igem/BBa_K1228008_sequence/1

B0010
type: SequenceAnnotation
persistent identity: annotation2337089
display id: annotation2337089
version: 1
top level: BBa_K1228008
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337089/range2337089/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337089/range2337089/1
type: Range
persistent identity: range2337089
display id: range2337089
version: 1
direction: direction/forward
top level: BBa_K1228008
start: 350
end: 428
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2337083
display id: annotation2337083
version: 1
top level: BBa_K1228008
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337083/range2337083/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337083/range2337083/1
type: Range
persistent identity: range2337083
display id: range2337083
version: 1
direction: direction/forward
top level: BBa_K1228008
start: 86
end: 91
orientation: inline

BBa_K541501
type: SequenceAnnotation
persistent identity: annotation2337087
display id: annotation2337087
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337087/range2337087/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337087/range2337087/1
type: Range
persistent identity: range2337087
display id: range2337087
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 1
end: 219
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2337082
display id: annotation2337082
version: 1
top level: BBa_K1228008
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337082/range2337082/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337082/range2337082/1
type: Range
persistent identity: range2337082
display id: range2337082
version: 1
direction: direction/forward
top level: BBa_K1228008
start: 63
end: 68
orientation: inline

BBa_K1228000
type: SequenceAnnotation
persistent identity: annotation2337088
display id: annotation2337088
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337088/range2337088/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337088/range2337088/1
type: Range
persistent identity: range2337088
display id: range2337088
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 228
end: 341
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2337084
display id: annotation2337084
version: 1
top level: BBa_K1228008
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337084/range2337084/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337084/range2337084/1
type: Range
persistent identity: range2337084
display id: range2337084
version: 1
direction: direction/forward
top level: BBa_K1228008
start: 106
end: 117
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2337085
display id: annotation2337085
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337085/range2337085/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337085/range2337085/1
type: Range
persistent identity: range2337085
display id: range2337085
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 106
end: 117
orientation: inline

SacB Signal tag
type: SequenceAnnotation
persistent identity: annotation2337086
display id: annotation2337086
version: 1
top level: BBa_K1228008
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337086/range2337086/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337086/range2337086/1
type: Range
persistent identity: range2337086
display id: range2337086
version: 1
direction: direction/forward
top level: BBa_K1228008
start: 124
end: 219
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2337081
display id: annotation2337081
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337081/range2337081/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337081/range2337081/1
type: Range
persistent identity: range2337081
display id: range2337081
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 1
end: 117
orientation: inline

BBa_K731722
type: SequenceAnnotation
persistent identity: annotation2337090
display id: annotation2337090
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337090/range2337090/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337090/range2337090/1
type: Range
persistent identity: range2337090
display id: range2337090
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 350
end: 428
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2337080
display id: annotation2337080
version: 1
top level: BBa_K1228008
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228008/annotation2337080/range2337080/1

https://synbiohub.org/public/igem/BBa_K1228008/annotation2337080/range2337080/1
type: Range
persistent identity: range2337080
display id: range2337080
version: 1
direction: direction/reverse
top level: BBa_K1228008
start: 1
end: 97
orientation: inline

sfGFP(Sp)
type: ComponentDefinition
persistent identity: BBa K1930006
display id: BBa_K1930006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: sfGFP(Sp)
creator: Barbora Waclawikova
created: 2016-10-15T11:00:00Z
modified: 2016-10-16T05:16:06Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Planning
bookmark: false
mutable description: This part is a reporter sfGFP(Sp) originally optimized for Streptococcus pneumoniae.
mutable notes: sfGFP originally optimized for streptococcus pneumonia because it could be shown that the signal in Bacillus is even brighter than the one from sfGFP(Bs).
mutable provenance: Plasmid pNW
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: sfGFP(Sp)
sequence: https://synbiohub.org/public/igem/BBa_K1930006_sequence/1

sfGFP(Sp)
type: SequenceAnnotation
persistent identity: annotation2513522
display id: annotation2513522
version: 1
top level: sfGFP(Sp)
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930006/annotation2513522/range2513522/1

https://synbiohub.org/public/igem/BBa_K1930006/annotation2513522/range2513522/1
type: Range
persistent identity: range2513522
display id: range2513522
version: 1
direction: direction/forward
top level: sfGFP(Sp)
start: 1
end: 722
orientation: inline

BBa_K174001
type: ComponentDefinition
persistent identity: BBa K174001
display id: BBa_K174001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Arabinose inducible system
creator: The Newcastle 2009 iGEM team
created: 2009-09-25T11:00:00Z
modified: 2015-05-08T01:10:58Z
discontinued: false
dominant: false
experience: experience/None
group u list: _277_
m user id: 0
owner id: 3942
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Comprised of araR binding sites and araE promoter. Regulates the expression of downstream genes with arabinose.
mutable notes: Forward primer used: GATCTG-GAATTCGCGGCCGCTTCTAGAG-CACAGCGTTCTTTGTAAG (Clamp sequence - Standard Biobrick prefix - first 18 base from the Biobrick) Reverse primer used: TGTGAC-ACTAGTA-GCCCTCCCGAATGTTGAG (Clamp sequence - SpeI site - last 18 base from the Biobrick)
mutable provenance: Wild-type Bacillus subtilis 168 strain. 200 bp long bindingsite_promoter_bindingsite_RBS is amplified by PCR with dangling end primers with EcoRI-NotI-XbaI restriction site at 5??? and SpeI at 3??? and inserted into a Biobrick compatible vector. The sequence is taken from wildtype Bacillus subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: sigA promoter
sequence annotation: rbs
sequence annotation: araR binding site
sequence: https://synbiohub.org/public/igem/BBa_K174001_sequence/1

sigA promoter
type: SequenceAnnotation
persistent identity: annotation2027217
display id: annotation2027217
version: 1
top level: BBa_K174001
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K174001/annotation2027217/range2027217/1

https://synbiohub.org/public/igem/BBa_K174001/annotation2027217/range2027217/1
type: Range
persistent identity: range2027217
display id: range2027217
version: 1
direction: direction/forward
top level: BBa_K174001
start: 80
end: 123
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2027219
display id: annotation2027219
version: 1
top level: BBa_K174001
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K174001/annotation2027219/range2027219/1

https://synbiohub.org/public/igem/BBa_K174001/annotation2027219/range2027219/1
type: Range
persistent identity: range2027219
display id: range2027219
version: 1
direction: direction/forward
top level: BBa_K174001
start: 208
end: 214
orientation: inline

araR binding site
type: SequenceAnnotation
persistent identity: annotation2027218
display id: annotation2027218
version: 1
top level: BBa_K174001
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K174001/annotation2027218/range2027218/1

https://synbiohub.org/public/igem/BBa_K174001/annotation2027218/range2027218/1
type: Range
persistent identity: range2027218
display id: range2027218
version: 1
direction: direction/forward
top level: BBa_K174001
start: 154
end: 178
orientation: inline

araR binding site
type: SequenceAnnotation
persistent identity: annotation2027216
display id: annotation2027216
version: 1
top level: BBa_K174001
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K174001/annotation2027216/range2027216/1

https://synbiohub.org/public/igem/BBa_K174001/annotation2027216/range2027216/1
type: Range
persistent identity: range2027216
display id: range2027216
version: 1
direction: direction/forward
top level: BBa_K174001
start: 32
end: 51
orientation: inline

BBa_K541025
type: ComponentDefinition
persistent identity: BBa K541025
display id: BBa_K541025
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin 1A (LipA) and LALF (SacB) protein for B.subtilis
creator: Mustafa Elitok
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli. On the other hand, Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: LALF from horseshoe crab, Reflectin from Cephalopod and promoter-RBS from B.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence: https://synbiohub.org/public/igem/BBa_K541025_sequence/1

BBa_K1085050
type: ComponentDefinition
persistent identity: BBa K1085050
display id: BBa_K1085050
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: des knock out
creator: Mirjam Groenewold
created: 2013-10-03T11:00:00Z
modified: 2015-06-08T04:02:33Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16171
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: blablabla
mutable notes: ..
mutable provenance: The part is derived from the genomic DNA of B. subtilis 168.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: DesK up
sequence annotation: Tet
sequence annotation: DesK down
sequence: https://synbiohub.org/public/igem/BBa_K1085050_sequence/1

DesK up
type: SequenceAnnotation
persistent identity: annotation2367618
display id: annotation2367618
version: 1
top level: BBa_K1085050
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085050/annotation2367618/range2367618/1

https://synbiohub.org/public/igem/BBa_K1085050/annotation2367618/range2367618/1
type: Range
persistent identity: range2367618
display id: range2367618
version: 1
direction: direction/forward
top level: BBa_K1085050
start: 1
end: 1072
orientation: inline

Tet
type: SequenceAnnotation
persistent identity: annotation2367619
display id: annotation2367619
version: 1
top level: BBa_K1085050
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085050/annotation2367619/range2367619/1

https://synbiohub.org/public/igem/BBa_K1085050/annotation2367619/range2367619/1
type: Range
persistent identity: range2367619
display id: range2367619
version: 1
direction: direction/forward
top level: BBa_K1085050
start: 1240
end: 2526
orientation: inline

DesK down
type: SequenceAnnotation
persistent identity: annotation2367620
display id: annotation2367620
version: 1
top level: BBa_K1085050
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085050/annotation2367620/range2367620/1

https://synbiohub.org/public/igem/BBa_K1085050/annotation2367620/range2367620/1
type: Range
persistent identity: range2367620
display id: range2367620
version: 1
direction: direction/forward
top level: BBa_K1085050
start: 2675
end: 3604
orientation: inline

BBa_K1185002
type: ComponentDefinition
persistent identity: BBa K1185002
display id: BBa_K1185002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: HBsu-RFP
creator: Vincent Leonardo
created: 2013-08-28T11:00:00Z
modified: 2015-06-08T09:30:41Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1498_
m user id: 4206
owner id: 16794
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick codes for a HBsu protein attached to a red fluorescent protein (RFP). HBsu is a non-specific DNA binding protein that binds to DNA as a homodimer. The HBsu is joined to the RFP through ten amino acid flexible linker sequence. This allows the observation of ''Bacillus subtilis'' DNA using fluorescence microscopy. The integration strategy that we opted for was to clone in the BioBrick into the Multiple cloning site of pMutin4 backbone. First we attached HindIII restriction sites on 5'end and SacII restriction sites on 3'end of the BioBrick. We then cut the pMutin4 backbone and BioBrick using the previously mentioned restriction enzymes, this allowed us to ligate the plasmid and BioBrick together. We also attached a ~300bp amyE homology region onto the 3'end of the BioBrick after the SacII to allow the single cross over and integration of the whole plasmid into the genome. The pMutin4 plasmid contains a ery+ resistance marker for ''B.subtilis'' and amp+ for ''E.coli'' and also contains lacI, lacZ and Pspac promoter which is an IPTG induced promoter which regulated the transcription of this BioBrick. An alternative method to use this part would be to clone this BioBrick out and use any Assembly protocol to attach a desired promoter, RBS and antibiotic resistance genes.
mutable notes: None
mutable provenance: The source of the HBsu coding sequence was the ''B. subtilis'' strain 168 genome, SwissProtTM accession number: P08821. The RFP sequence was sourced from BBa_E1010 and the linker from: BBa_K105012.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: hbs
sequence annotation: linker sequence_BBa_K105012
sequence annotation: 3-frame stop codon
sequence annotation: RFP_BBa_E1010
sequence annotation: RBS-with post spacer
sequence: https://synbiohub.org/public/igem/BBa_K1185002_sequence/1

hbs
type: SequenceAnnotation
persistent identity: annotation2333321
display id: annotation2333321
version: 1
top level: BBa_K1185002
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1185002/annotation2333321/range2333321/1

https://synbiohub.org/public/igem/BBa_K1185002/annotation2333321/range2333321/1
type: Range
persistent identity: range2333321
display id: range2333321
version: 1
direction: direction/forward
top level: BBa_K1185002
start: 21
end: 296
orientation: inline

linker sequence_BBa_K105012
type: SequenceAnnotation
persistent identity: annotation2333322
display id: annotation2333322
version: 1
top level: BBa_K1185002
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185002/annotation2333322/range2333322/1

https://synbiohub.org/public/igem/BBa_K1185002/annotation2333322/range2333322/1
type: Range
persistent identity: range2333322
display id: range2333322
version: 1
direction: direction/forward
top level: BBa_K1185002
start: 297
end: 326
orientation: inline

3-frame stop codon
type: SequenceAnnotation
persistent identity: annotation2333326
display id: annotation2333326
version: 1
top level: BBa_K1185002
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1185002/annotation2333326/range2333326/1

https://synbiohub.org/public/igem/BBa_K1185002/annotation2333326/range2333326/1
type: Range
persistent identity: range2333326
display id: range2333326
version: 1
direction: direction/forward
top level: BBa_K1185002
start: 1005
end: 1012
orientation: inline

RFP_BBa_E1010
type: SequenceAnnotation
persistent identity: annotation2333324
display id: annotation2333324
version: 1
top level: BBa_K1185002
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185002/annotation2333324/range2333324/1

https://synbiohub.org/public/igem/BBa_K1185002/annotation2333324/range2333324/1
type: Range
persistent identity: range2333324
display id: range2333324
version: 1
direction: direction/forward
top level: BBa_K1185002
start: 327
end: 1004
orientation: inline

RBS-with post spacer
type: SequenceAnnotation
persistent identity: annotation2333320
display id: annotation2333320
version: 1
top level: BBa_K1185002
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1185002/annotation2333320/range2333320/1

https://synbiohub.org/public/igem/BBa_K1185002/annotation2333320/range2333320/1
type: Range
persistent identity: range2333320
display id: range2333320
version: 1
direction: direction/forward
top level: BBa_K1185002
start: 1
end: 20
orientation: inline

BBa_K1351017
type: ComponentDefinition
persistent identity: BBa K1351017
display id: BBa_K1351017
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SdpI with RBS: Immunity against the cannibalsim toxin sdpC of B. subtilis
creator: Philipp Popp & Roman Herzog
created: 2014-09-08T11:00:00Z
modified: 2015-06-01T08:18:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20046
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: This gene codes for the immunity against a cannibalism toxin of Bacillus subtilis namely the sdpC. The sdpI gene is regulated by a separate promoter (PsdpIR) which is responsible for the operon sdpIR. Cannibalsim toxins are mainly produced by b. subtilis in mid to late stationary phase when nutrients are limited.
mutable notes: No changes were preformed regarding the sequence referring to the bio brick standard.
mutable provenance: The sequence comes from a PCR with B. subtilis gDNA template.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: cds
sequence: https://synbiohub.org/public/igem/BBa_K1351017_sequence/1

cds
type: SequenceAnnotation
persistent identity: annotation2382809
display id: annotation2382809
version: 1
top level: BBa_K1351017
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351017/annotation2382809/range2382809/1

https://synbiohub.org/public/igem/BBa_K1351017/annotation2382809/range2382809/1
type: Range
persistent identity: range2382809
display id: range2382809
version: 1
direction: direction/forward
top level: BBa_K1351017
start: 1
end: 333
orientation: inline

BBa_K104004
type: ComponentDefinition
persistent identity: BBa K104004
display id: BBa_K104004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaR CDS (Coding sequence)
creator: Anil Wipat
created: 2009-10-13T11:00:00Z
modified: 2015-06-09T08:41:12Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is the coding sequence for the spaR gene from Bacillus subtilis ATCC6633. SpaR is the response regulator for the subtilin-responsive two component system encoded by the the spaRK operon. Activated SpaR will upregulate promoters that contain a spa-box sequence, such as pspaS.
mutable notes: This promoter forms part of the complex device BBa_K104001
mutable provenance: The part comes from the sequence of the spaRK operon from Genbank entry: Bacillus subtilis spaR and spaK genes, complete coding regions, gi|143569|gb|L07785.1|BACSPARK[143569]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spaR
sequence: https://synbiohub.org/public/igem/BBa_K104004_sequence/1

spaR
type: SequenceAnnotation
persistent identity: annotation2040644
display id: annotation2040644
version: 1
top level: BBa_K104004
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K104004/annotation2040644/range2040644/1

https://synbiohub.org/public/igem/BBa_K104004/annotation2040644/range2040644/1
type: Range
persistent identity: range2040644
display id: range2040644
version: 1
direction: direction/forward
top level: BBa_K104004
start: 1
end: 663
orientation: inline

BBa_K1701004
type: ComponentDefinition
persistent identity: BBa K1701004
display id: BBa_K1701004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SUP
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2015-09-23T08:32:46Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 21319
owner id: 21319
owning group id: 9
status: status/Planning
bookmark: true
mutable description: A uranyl-binding protein (SUP) with potential uranyl binding sites which are selective for uranyl.
mutable notes: None
mutable provenance: Zhou, L., et al., A protein engineered to bind uranyl selectively and with femtomolar affinity. Nat Chem, 2014. 6(3): p. 236-41.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1701004_sequence/1

BBa_K104005
type: ComponentDefinition
persistent identity: BBa K104005
display id: BBa_K104005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS_spaK
creator: Anil Wipat
created: 2009-10-13T11:00:00Z
modified: 2015-06-09T09:00:00Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is the ribsome binding site for the spaK gene. spaK encodes the sensor kinase for the two component system encoded by the spaRK operon that senses the quorum peptide subtilin.
mutable notes: This part forms part of the complex device BBa_K104001
mutable provenance: The part comes from the sequence of the spaRK operon from Genbank entry: Bacillus subtilis spaR and spaK genes, complete coding regions, gi|143569|gb|L07785.1|BACSPARK[143569]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: RBS_spaK
sequence: https://synbiohub.org/public/igem/BBa_K104005_sequence/1

RBS_spaK
type: SequenceAnnotation
persistent identity: annotation2040660
display id: annotation2040660
version: 1
top level: BBa_K104005
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K104005/annotation2040660/range2040660/1

https://synbiohub.org/public/igem/BBa_K104005/annotation2040660/range2040660/1
type: Range
persistent identity: range2040660
display id: range2040660
version: 1
direction: direction/forward
top level: BBa_K104005
start: 1
end: 9
orientation: inline

BBa_K1351032
type: ComponentDefinition
persistent identity: BBa K1351032
display id: BBa_K1351032
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 5
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:10:24Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351032_sequence/1

BBa_K143075
type: ComponentDefinition
persistent identity: BBa K143075
display id: BBa_K143075
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: B. subtilis AmyE locus GFP output promoter and RBS tester
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 3' Integration sequence( BBa_K143002 ) coupled to GFP proein coding region and the registry double terminator (part BBa_I13401 . The amyE 3' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 5' amyE integration sequence( BBa_K143001 ) is cloned onto the 5' end of the construct. The GFP coding region gives a fluorescent output when a promoter and RBS are placed immediately upstream of the coding region while the terminator prevents readthrough.
mutable notes: The amyE 3' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. GFP and the double terminator were obtained from the registry.
mutable provenance: The amyE 3' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the GFP and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_I13401
component: BBa_K143002
sequence annotation: BBa_I13401
sequence annotation: BBa_K143002
sequence: https://synbiohub.org/public/igem/BBa_K143075_sequence/1

BBa_I13401
type: Component
persistent identity: component2220451
display id: component2220451
version: 1
top level: BBa_K143075
access: public
definition: https://synbiohub.org/public/igem/BBa_I13401/1

BBa_K143002
type: Component
persistent identity: component2220453
display id: component2220453
version: 1
top level: BBa_K143075
access: public
definition: amyE 3 IS

BBa_I13401
type: SequenceAnnotation
persistent identity: annotation2220451
display id: annotation2220451
version: 1
top level: BBa_K143075
location: https://synbiohub.org/public/igem/BBa_K143075/annotation2220451/range2220451/1
component: BBa_I13401

https://synbiohub.org/public/igem/BBa_K143075/annotation2220451/range2220451/1
type: Range
persistent identity: range2220451
display id: range2220451
version: 1
direction: direction/reverse
top level: BBa_K143075
start: 1
end: 857
orientation: inline

BBa_K143002
type: SequenceAnnotation
persistent identity: annotation2220453
display id: annotation2220453
version: 1
top level: BBa_K143075
location: https://synbiohub.org/public/igem/BBa_K143075/annotation2220453/range2220453/1
component: BBa_K143002

https://synbiohub.org/public/igem/BBa_K143075/annotation2220453/range2220453/1
type: Range
persistent identity: range2220453
display id: range2220453
version: 1
direction: direction/reverse
top level: BBa_K143075
start: 866
end: 1867
orientation: inline

BBa_K302011
type: ComponentDefinition
persistent identity: BBa K302011
display id: BBa_K302011
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: swrA
creator: Harsh Sheth, Alan Koh, Steven Woodhouse
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: ''Bacillus subtilis'' 168 is unable to biosynthesise flagella. The ''swrA'' gene restores this capability.
mutable notes: Extra TAA stop codon added.
mutable provenance: ''Bacillius subtilis'' 3610 genomic DNA, by PCR.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Added TAA
sequence: https://synbiohub.org/public/igem/BBa_K302011_sequence/1

Added TAA
type: SequenceAnnotation
persistent identity: annotation2077615
display id: annotation2077615
version: 1
top level: BBa_K302011
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302011/annotation2077615/range2077615/1

https://synbiohub.org/public/igem/BBa_K302011/annotation2077615/range2077615/1
type: Range
persistent identity: range2077615
display id: range2077615
version: 1
direction: direction/forward
top level: BBa_K302011
start: 430
end: 432
orientation: inline

BBa_K1351038
type: ComponentDefinition
persistent identity: BBa K1351038
display id: BBa_K1351038
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P3-promoter
creator: Nikolai Peschek
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:14:22Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20162
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Quorum sensing dependant promotor (AIP II). Regulated by phosphorylated AgrA. Contains four AgrA binding sites upstream.
mutable notes: Several mutated illegal restriction sites. The mutated codons have been optimized regarding the codon usage of Bacillus subtilis.
mutable provenance: artificially synthesized
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: AgrA box (binding site)
sequence annotation: -10
sequence annotation: -35
sequence: https://synbiohub.org/public/igem/BBa_K1351038_sequence/1

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421886
display id: annotation2421886
version: 1
top level: BBa_K1351038
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421886/range2421886/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421886/range2421886/1
type: Range
persistent identity: range2421886
display id: range2421886
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 44
end: 51
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2421890
display id: annotation2421890
version: 1
top level: BBa_K1351038
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421890/range2421890/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421890/range2421890/1
type: Range
persistent identity: range2421890
display id: range2421890
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 160
end: 165
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2421889
display id: annotation2421889
version: 1
top level: BBa_K1351038
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421889/range2421889/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421889/range2421889/1
type: Range
persistent identity: range2421889
display id: range2421889
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 133
end: 138
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421888
display id: annotation2421888
version: 1
top level: BBa_K1351038
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421888/range2421888/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421888/range2421888/1
type: Range
persistent identity: range2421888
display id: range2421888
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 114
end: 121
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421887
display id: annotation2421887
version: 1
top level: BBa_K1351038
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421887/range2421887/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421887/range2421887/1
type: Range
persistent identity: range2421887
display id: range2421887
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 97
end: 100
orientation: inline

AgrA box (binding site)
type: SequenceAnnotation
persistent identity: annotation2421885
display id: annotation2421885
version: 1
top level: BBa_K1351038
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351038/annotation2421885/range2421885/1

https://synbiohub.org/public/igem/BBa_K1351038/annotation2421885/range2421885/1
type: Range
persistent identity: range2421885
display id: range2421885
version: 1
direction: direction/forward
top level: BBa_K1351038
start: 22
end: 29
orientation: inline

pyrD 3 IS
type: ComponentDefinition
persistent identity: BBa K143009
display id: BBa_K143009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 3??? Integration Sequence for the pyrD locus of B. subtilis
creator: James Chappell
created: 2008-09-16T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Integration sequences allow DNA to be incorporated into the chromosome of a host cell at a specific locus using leading (5') and trailing (3') DNA sequences that are the same as those at a specific locus of the chromosome. The 3' integration sequence can be added to the back of a Biobrick construct and the 5' integration sequence specific for this locus (BBa_K143008) to the front of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The PyrD gene has been a target for numerous integration vectors, including the shuttle vectors pPyr-Cm (GenBank Accession number AY464558) and pPyr-Kan (GenBank Accession number AY464559) [1]. Integration into the PyrD locus makes the B.subtilis auxotrophs for uracil and transformants require about 40ug/ml to allow for growth. This allows us to assay for integration by growing a replica plate with no supplemented uracil to negatively select for transformants.
mutable notes: The PyrD integration sequences was designed from the PyrD gene's Genbank entry[1] and identification of the sequence directly upstream of the gene on the chromosome (found using NCBI's sequence viewer). The upstream and EpsE gene sequence was analysed for restriction sites and primers (with biobrick prefix and suffix sequences) for two approximately equally sized integration sequences were desgined.
mutable provenance: The 3??? integration sequence was taken from the B.subtilis chromosome and is homologous to the back section of the PyrD gene. It was synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: PyrD 3' Integration Sequence
sequence: https://synbiohub.org/public/igem/BBa_K143009_sequence/1

PyrD 3' Integration Sequence
type: SequenceAnnotation
persistent identity: annotation1977517
display id: annotation1977517
version: 1
top level: pyrD 3 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143009/annotation1977517/range1977517/1

https://synbiohub.org/public/igem/BBa_K143009/annotation1977517/range1977517/1
type: Range
persistent identity: range1977517
display id: range1977517
version: 1
direction: direction/forward
top level: pyrD 3 IS
start: 1
end: 467
orientation: inline

PAtpI
type: ComponentDefinition
persistent identity: BBa K1930005
display id: BBa_K1930005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PAtpI
creator: Eike Mahlandt
created: 2016-10-15T11:00:00Z
modified: 2016-10-16T04:58:48Z
discontinued: false
dominant: false
experience: experience/None
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Planning
bookmark: false
mutable description: The promoter PAtpI has its origin in Bacillus subtilis. It is responsible for the expression of atpA gene (ATP synthesis) during the first 30 min of germination [https://www.ncbi.nlm.nih.gov/pubmed/25661487 Sinai''et al.'']. This gene is part of an operon, therefore the promoter region in front of the first protein coding gene (atpI) in this operon was chosen. The region was checked for the binding of sigma factors and transcription factors with DBTBS. No binding factors were found with the highest significance level. In our project we wanted to find a constitutive ON promoter for our ciprofloxacin resistance casette. In the following part we put the promoter PAtpI in the pSB1C3 backbone to make it available to other iGEM teams.
mutable notes: The promoter PAtpI has its origin in Bacillus subtilis. It is responsible for the expression of atpA gene (ATP synthesis) during the first 30 min of germination [https://www.ncbi.nlm.nih.gov/pubmed/25661487 Sinai''et al.'']. This gene is part of an operon, therefore the promoter region in front of the first protein coding gene (atpI) in this operon was chosen. The region was checked for the binding of sigma factors and transcription factors with DBTBS. No binding factors were found with the highest significance level. In our project we wanted to find a constitutive ON promoter for our ciprofloxacin resistance casette. In the following part we put the promoter PAtpI in the pSB1C3 backbone to make it available to other iGEM teams.
mutable provenance: Ordered as gBlock. IDT (Integrated DNA technologies).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: P(AtpI)
sequence: https://synbiohub.org/public/igem/BBa_K1930005_sequence/1

P(AtpI)
type: SequenceAnnotation
persistent identity: annotation2513454
display id: annotation2513454
version: 1
top level: PAtpI
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1930005/annotation2513454/range2513454/1

https://synbiohub.org/public/igem/BBa_K1930005/annotation2513454/range2513454/1
type: Range
persistent identity: range2513454
display id: range2513454
version: 1
direction: direction/forward
top level: PAtpI
start: 1
end: 349
orientation: inline

BBa_K143077
type: ComponentDefinition
persistent identity: BBa K143077
display id: BBa_K143077
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P43-gsiB GFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: GFP gene under expresson of the P43 promoter and gsiB RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the P43 promoter and gsiB RBS (Combined part BBa_K143050 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, GFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter P43 and RBS gsiB were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the P43-gsiB part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143075
component: BBa_K143071
sequence annotation: BBa_K143075
sequence annotation: BBa_K143071
sequence: https://synbiohub.org/public/igem/BBa_K143077_sequence/1

BBa_K143075
type: Component
persistent identity: component2232828
display id: component2232828
version: 1
top level: BBa_K143077
access: public
definition: BBa_K143075

BBa_K143071
type: Component
persistent identity: component2232817
display id: component2232817
version: 1
top level: BBa_K143077
access: public
definition: BBa_K143071

BBa_K143075
type: SequenceAnnotation
persistent identity: annotation2232828
display id: annotation2232828
version: 1
top level: BBa_K143077
location: https://synbiohub.org/public/igem/BBa_K143077/annotation2232828/range2232828/1
component: BBa_K143075

https://synbiohub.org/public/igem/BBa_K143077/annotation2232828/range2232828/1
type: Range
persistent identity: range2232828
display id: range2232828
version: 1
direction: direction/reverse
top level: BBa_K143077
start: 1498
end: 3364
orientation: inline

BBa_K143071
type: SequenceAnnotation
persistent identity: annotation2232817
display id: annotation2232817
version: 1
top level: BBa_K143077
location: https://synbiohub.org/public/igem/BBa_K143077/annotation2232817/range2232817/1
component: BBa_K143071

https://synbiohub.org/public/igem/BBa_K143077/annotation2232817/range2232817/1
type: Range
persistent identity: range2232817
display id: range2232817
version: 1
direction: direction/reverse
top level: BBa_K143077
start: 1
end: 1491
orientation: inline

BBa_K1351039
type: ComponentDefinition
persistent identity: BBa K1351039
display id: BBa_K1351039
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PxylA, a xylose inducible promoter for Bacillus subtilis
creator: Jara Radeck
created: 2014-10-16T11:00:00Z
modified: 2015-06-01T08:15:51Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 6378
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: P''xylA'' is the native promoter of the ''Bacillus subtilis'' xylose degradation locus ''xyl''. The promoter is regulated by the repressor XylR which is not encoded by this BioBrick. The regulation of P''xylA'' is only ensured, if you are working with ''B. subtilis'' as a chassis.
mutable notes: This is an inducible promoter for Bacillus subtilis.
mutable provenance: The part was generated by PCR from genomic DNA of ''B. subtilis'' W168.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -10
sequence annotation: XylR binding site
sequence: https://synbiohub.org/public/igem/BBa_K1351039_sequence/1

-10
type: SequenceAnnotation
persistent identity: annotation2425214
display id: annotation2425214
version: 1
top level: BBa_K1351039
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1351039/annotation2425214/range2425214/1

https://synbiohub.org/public/igem/BBa_K1351039/annotation2425214/range2425214/1
type: Range
persistent identity: range2425214
display id: range2425214
version: 1
direction: direction/forward
top level: BBa_K1351039
start: 164
end: 172
orientation: inline

XylR binding site
type: SequenceAnnotation
persistent identity: annotation2425215
display id: annotation2425215
version: 1
top level: BBa_K1351039
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K1351039/annotation2425215/range2425215/1

https://synbiohub.org/public/igem/BBa_K1351039/annotation2425215/range2425215/1
type: Range
persistent identity: range2425215
display id: range2425215
version: 1
direction: direction/forward
top level: BBa_K1351039
start: 187
end: 206
orientation: inline

BBa_K1351007
type: ComponentDefinition
persistent identity: BBa K1351007
display id: BBa_K1351007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: CWB domain of B. subtilis minor autolysin LytE
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:54:58Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Cell wall binding domain and signal peptide (amino acids 1 to 207) of ''Bacillus subtilis'' minor autolysin LytE (probable peptidoglycan endopeptidase, Uniprot [http://www.uniprot.org/uniprot/P54421 P54421]). This domain has been used for displaying beta-lactamase on the cell surface of ''B. subtilis'' (Chen ''et. al.'', 2008). Used in the [http://2014.igem.org/Team:LMU-Munich/Project BaKillus project] to display pathogen-specific peptides to mediate adhesion of ''B. subtilis'' to pathogens. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: Due to the N-terminal signal peptide, this part allows only C-terminal fusions of proteins to be displayed on the cell surface. The CWB domain of LytE consists of three N‐terminal LysM cell wall‐binding motifs, ranging from amino acid 28 to 193. To minimize possible effects of a translational fusion to the CWB domain, the part includes the downstream unstructered region until amino acid 207. An additional linker can be inserted to allow more structural flexibilty.
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. LytE_ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC ATGAAAAAGCAAATCATTACAGCTACGACAGC LytE_207_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT CGATGAAGATGAAGCAGGTTTTGAGC A SpeI site was removed by changing T to C at position 399 without altering the protein sequence by fusion PCR with the following mutagenesis primers: LytE_SpeI399mut_fwd: GTCCTGAAACTGAAAGGTTCAACcAGTTCAAGCAGCTCCAGCTCATCAAAAG LytE_SpeI399mut_rev: CTTTTGATGAGCTGGAGCTGCTTGAACTgGTTGAACCTTTCAGTTTCAGGAC
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: LysM
sequence annotation: signal peptide
sequence: https://synbiohub.org/public/igem/BBa_K1351007_sequence/1

LysM
type: SequenceAnnotation
persistent identity: annotation2394085
display id: annotation2394085
version: 1
top level: BBa_K1351007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351007/annotation2394085/range2394085/1

https://synbiohub.org/public/igem/BBa_K1351007/annotation2394085/range2394085/1
type: Range
persistent identity: range2394085
display id: range2394085
version: 1
direction: direction/forward
top level: BBa_K1351007
start: 264
end: 392
orientation: inline

signal peptide
type: SequenceAnnotation
persistent identity: annotation2394083
display id: annotation2394083
version: 1
top level: BBa_K1351007
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1351007/annotation2394083/range2394083/1

https://synbiohub.org/public/igem/BBa_K1351007/annotation2394083/range2394083/1
type: Range
persistent identity: range2394083
display id: range2394083
version: 1
direction: direction/forward
top level: BBa_K1351007
start: 1
end: 75
orientation: inline

LysM
type: SequenceAnnotation
persistent identity: annotation2394084
display id: annotation2394084
version: 1
top level: BBa_K1351007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351007/annotation2394084/range2394084/1

https://synbiohub.org/public/igem/BBa_K1351007/annotation2394084/range2394084/1
type: Range
persistent identity: range2394084
display id: range2394084
version: 1
direction: direction/forward
top level: BBa_K1351007
start: 84
end: 212
orientation: inline

LysM
type: SequenceAnnotation
persistent identity: annotation2394096
display id: annotation2394096
version: 1
top level: BBa_K1351007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351007/annotation2394096/range2394096/1

https://synbiohub.org/public/igem/BBa_K1351007/annotation2394096/range2394096/1
type: Range
persistent identity: range2394096
display id: range2394096
version: 1
direction: direction/forward
top level: BBa_K1351007
start: 453
end: 581
orientation: inline

PtasA
type: ComponentDefinition
persistent identity: BBa K1701003
display id: BBa_K1701003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PtasA
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2015-09-08T05:54:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 21319
owner id: 21319
owning group id: 9
status: status/Planning
bookmark: false
mutable description: The PtasA gene is the promoter of the TasA gene, and the TasA gene codes for the protein TasA.
mutable notes: None
mutable provenance: http://www.ncbi.nlm.nih.gov/nuccore/223666305
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K1701003_sequence/1

BBa_K1364021
type: ComponentDefinition
persistent identity: BBa K1364021
display id: BBa_K1364021
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Integrative plasmid for Bacillus subtilis (pSBbs4E)
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T09:20:02Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: ermB
sequence annotation: 'thrC
sequence annotation: thrC'
sequence annotation: amp
sequence: https://synbiohub.org/public/igem/BBa_K1364021_sequence/1

ermB
type: SequenceAnnotation
persistent identity: annotation2425222
display id: annotation2425222
version: 1
top level: BBa_K1364021
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364021/annotation2425222/range2425222/1

https://synbiohub.org/public/igem/BBa_K1364021/annotation2425222/range2425222/1
type: Range
persistent identity: range2425222
display id: range2425222
version: 1
direction: direction/forward
top level: BBa_K1364021
start: 288
end: 1047
orientation: inline

'thrC
type: SequenceAnnotation
persistent identity: annotation2425223
display id: annotation2425223
version: 1
top level: BBa_K1364021
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364021/annotation2425223/range2425223/1

https://synbiohub.org/public/igem/BBa_K1364021/annotation2425223/range2425223/1
type: Range
persistent identity: range2425223
display id: range2425223
version: 1
direction: direction/forward
top level: BBa_K1364021
start: 1181
end: 1736
orientation: inline

thrC'
type: SequenceAnnotation
persistent identity: annotation2425225
display id: annotation2425225
version: 1
top level: BBa_K1364021
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364021/annotation2425225/range2425225/1

https://synbiohub.org/public/igem/BBa_K1364021/annotation2425225/range2425225/1
type: Range
persistent identity: range2425225
display id: range2425225
version: 1
direction: direction/forward
top level: BBa_K1364021
start: 4661
end: 5163
orientation: inline

amp
type: SequenceAnnotation
persistent identity: annotation2425224
display id: annotation2425224
version: 1
top level: BBa_K1364021
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364021/annotation2425224/range2425224/1

https://synbiohub.org/public/igem/BBa_K1364021/annotation2425224/range2425224/1
type: Range
persistent identity: range2425224
display id: range2425224
version: 1
direction: direction/forward
top level: BBa_K1364021
start: 3347
end: 4205
orientation: inline

PgsiB-spoV
type: ComponentDefinition
persistent identity: BBa K143061
display id: BBa_K143061
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter gsiB and RBS spoVG for B. subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Sigma B dependant promoter gsiB( BBa_K143011 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. In ''B. subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter ctc has been used previously as a read out for the activation of sigma factor B 2. PgsiB has been used to take an input of blue light and give a '''Ribosomes per second'''(RiPS) output. To work as a blue light receiver correctly, over-expression of the blue light receptor '''YtvA''' ( BBa_K143037 ) is required. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter gsiB was obtained from the ''B. subtilis'' genome and published papers1 2. RBS-spoVG were obtained from papers3 and the sequence synthesised by GeneArt
mutable provenance: Pctc-spoVG was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143021
component: BBa_K143011
sequence annotation: BBa_K143021
sequence annotation: BBa_K143011
sequence: https://synbiohub.org/public/igem/BBa_K143061_sequence/1

BBa_K143021
type: Component
persistent identity: component1978537
display id: component1978537
version: 1
top level: PgsiB-spoV
access: public
definition: RBS-spoVG

BBa_K143011
type: Component
persistent identity: component1978535
display id: component1978535
version: 1
top level: PgsiB-spoV
access: public
definition: PgsiB

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1978537
display id: annotation1978537
version: 1
top level: PgsiB-spoV
location: https://synbiohub.org/public/igem/BBa_K143061/annotation1978537/range1978537/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143061/annotation1978537/range1978537/1
type: Range
persistent identity: range1978537
display id: range1978537
version: 1
direction: direction/reverse
top level: PgsiB-spoV
start: 47
end: 58
orientation: inline

BBa_K143011
type: SequenceAnnotation
persistent identity: annotation1978535
display id: annotation1978535
version: 1
top level: PgsiB-spoV
location: https://synbiohub.org/public/igem/BBa_K143061/annotation1978535/range1978535/1
component: BBa_K143011

https://synbiohub.org/public/igem/BBa_K143061/annotation1978535/range1978535/1
type: Range
persistent identity: range1978535
display id: range1978535
version: 1
direction: direction/reverse
top level: PgsiB-spoV
start: 1
end: 38
orientation: inline

BBa_K541516
type: ComponentDefinition
persistent identity: BBa K541516
display id: BBa_K541516
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin1A for B.subtiis with SacB signal sequence
creator: Mustafa Elitok
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli.
mutable notes: Optimized for B.subtilis
mutable provenance: Cephalopod and B.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K143021
component: BBa_K143012
sequence annotation: BBa_K143021
sequence annotation: BBa_K143012
sequence: https://synbiohub.org/public/igem/BBa_K541516_sequence/1

BBa_K143021
type: Component
persistent identity: component2123542
display id: component2123542
version: 1
top level: BBa_K541516
access: public
definition: RBS-spoVG

BBa_K143012
type: Component
persistent identity: component2123540
display id: component2123540
version: 1
top level: BBa_K541516
access: public
definition: Pveg

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2123542
display id: annotation2123542
version: 1
top level: BBa_K541516
location: https://synbiohub.org/public/igem/BBa_K541516/annotation2123542/range2123542/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K541516/annotation2123542/range2123542/1
type: Range
persistent identity: range2123542
display id: range2123542
version: 1
direction: direction/reverse
top level: BBa_K541516
start: 106
end: 117
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2123540
display id: annotation2123540
version: 1
top level: BBa_K541516
location: https://synbiohub.org/public/igem/BBa_K541516/annotation2123540/range2123540/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K541516/annotation2123540/range2123540/1
type: Range
persistent identity: range2123540
display id: range2123540
version: 1
direction: direction/reverse
top level: BBa_K541516
start: 1
end: 97
orientation: inline

BBa_K1399005
type: ComponentDefinition
persistent identity: BBa K1399005
display id: BBa_K1399005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP (mut3b) with AAV-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP (mut3b) (see part BBa_E0040) with added AAV-ssrA degradation tag (part BBa_I11012). The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYAAAV and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The AAV tag is reported to lead to reasonably fast protein degradation, degrading GFP with rate -0.012 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease and SspB mediator concentrations, protein stability, Km of binding to the protease, temperature [3]. References: [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to RFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (AAV in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: GFP comes from part BBa_E0040, tag sequence was obtained from part I11012, but same tag was also used in paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: AAV-ssrA tag
sequence annotation: GFP (mut3b)
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399005_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383911
display id: annotation2383911
version: 1
top level: BBa_K1399005
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399005/annotation2383911/range2383911/1

https://synbiohub.org/public/igem/BBa_K1399005/annotation2383911/range2383911/1
type: Range
persistent identity: range2383911
display id: range2383911
version: 1
direction: direction/forward
top level: BBa_K1399005
start: 748
end: 750
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383912
display id: annotation2383912
version: 1
top level: BBa_K1399005
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399005/annotation2383912/range2383912/1

https://synbiohub.org/public/igem/BBa_K1399005/annotation2383912/range2383912/1
type: Range
persistent identity: range2383912
display id: range2383912
version: 1
direction: direction/forward
top level: BBa_K1399005
start: 751
end: 753
orientation: inline

AAV-ssrA tag
type: SequenceAnnotation
persistent identity: annotation2383910
display id: annotation2383910
version: 1
top level: BBa_K1399005
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399005/annotation2383910/range2383910/1

https://synbiohub.org/public/igem/BBa_K1399005/annotation2383910/range2383910/1
type: Range
persistent identity: range2383910
display id: range2383910
version: 1
direction: direction/forward
top level: BBa_K1399005
start: 715
end: 747
orientation: inline

GFP (mut3b)
type: SequenceAnnotation
persistent identity: annotation2383909
display id: annotation2383909
version: 1
top level: BBa_K1399005
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399005/annotation2383909/range2383909/1

https://synbiohub.org/public/igem/BBa_K1399005/annotation2383909/range2383909/1
type: Range
persistent identity: range2383909
display id: range2383909
version: 1
direction: direction/forward
top level: BBa_K1399005
start: 4
end: 714
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383908
display id: annotation2383908
version: 1
top level: BBa_K1399005
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399005/annotation2383908/range2383908/1

https://synbiohub.org/public/igem/BBa_K1399005/annotation2383908/range2383908/1
type: Range
persistent identity: range2383908
display id: range2383908
version: 1
direction: direction/forward
top level: BBa_K1399005
start: 1
end: 3
orientation: inline

R38
type: ComponentDefinition
persistent identity: BBa K780001
display id: BBa_K780001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Strong RBS for Bacillus Subtilis
creator: Krzysztof Szczepaniak
created: 2012-09-25T11:00:00Z
modified: 2015-05-08T01:13:18Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1034_
m user id: 0
owner id: 10271
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Natural RBS sequence for Bacillus Subtilis, described in the literature as a strong RBS for this bacteria.
mutable notes: -
mutable provenance: From genomic sequence Bacillus Subtilis.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K780001_sequence/1

pSBBs4S
type: ComponentDefinition
persistent identity: BBa K823024
display id: BBa_K823024
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs4S-Pxyl: Integrative expression vector for Bacillus subtilis</i
creator: Jara Radeck
created: 2012-08-20T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Fails
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part is an expression vector for Bacillus subtilis. It integrates at the thrC locus. It has a ampicillin resistance for cloning in E.coli and chloramphenicol resistance for selection in B.subtilis. The multiple cloning site downstream of a Pxyl promoter, that is inducible with xylose. This BioBrick is part of the LMU 2012 igem project Bacillus BioBrick Box http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks
mutable notes: We removed any forbidden restriction sites by site-directed mutagenesis PCR. The clonging site also includes a rfp for selection for cloning in E.coli.
mutable provenance: This part is an igem compatible version of the Bacillus expression vector pXT
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: thrB
sequence annotation: thrC'
sequence annotation: 'thrC
sequence annotation: bla
sequence annotation: hom
sequence annotation: spc
sequence annotation: Pxly region
sequence: https://synbiohub.org/public/igem/BBa_K823024_sequence/1

thrB
type: SequenceAnnotation
persistent identity: annotation2180242
display id: annotation2180242
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180242/range2180242/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180242/range2180242/1
type: Range
persistent identity: range2180242
display id: range2180242
version: 1
direction: direction/forward
top level: pSBBs4S
start: 1453
end: 1863
orientation: inline

thrC'
type: SequenceAnnotation
persistent identity: annotation2180245
display id: annotation2180245
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180245/range2180245/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180245/range2180245/1
type: Range
persistent identity: range2180245
display id: range2180245
version: 1
direction: direction/forward
top level: pSBBs4S
start: 4033
end: 4572
orientation: inline

'thrC
type: SequenceAnnotation
persistent identity: annotation2180241
display id: annotation2180241
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180241/range2180241/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180241/range2180241/1
type: Range
persistent identity: range2180241
display id: range2180241
version: 1
direction: direction/forward
top level: pSBBs4S
start: 1028
end: 1456
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2180243
display id: annotation2180243
version: 1
top level: pSBBs4S
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180243/range2180243/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180243/range2180243/1
type: Range
persistent identity: range2180243
display id: range2180243
version: 1
direction: direction/reverse
top level: pSBBs4S
start: 2716
end: 3576
orientation: inline

hom
type: SequenceAnnotation
persistent identity: annotation2180244
display id: annotation2180244
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180244/range2180244/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180244/range2180244/1
type: Range
persistent identity: range2180244
display id: range2180244
version: 1
direction: direction/forward
top level: pSBBs4S
start: 3731
end: 4033
orientation: inline

spc
type: SequenceAnnotation
persistent identity: annotation2180240
display id: annotation2180240
version: 1
top level: pSBBs4S
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180240/range2180240/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180240/range2180240/1
type: Range
persistent identity: range2180240
display id: range2180240
version: 1
direction: direction/forward
top level: pSBBs4S
start: 211
end: 885
orientation: inline

Pxly region
type: SequenceAnnotation
persistent identity: annotation2180246
display id: annotation2180246
version: 1
top level: pSBBs4S
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823024/annotation2180246/range2180246/1

https://synbiohub.org/public/igem/BBa_K823024/annotation2180246/range2180246/1
type: Range
persistent identity: range2180246
display id: range2180246
version: 1
direction: direction/forward
top level: pSBBs4S
start: 4539
end: 4763
orientation: inline

BBa_K823000
type: ComponentDefinition
persistent identity: BBa K823000
display id: BBa_K823000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PliaG
creator: Korinna Kraft
created: 2012-07-15T11:00:00Z
modified: 2015-05-08T01:13:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12081
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Promoter of the liaG gene of Bacillus subtilis, weak constitutive
mutable notes: no considerations
mutable provenance: Bacillus subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: PliaG
sequence annotation: -10 box
sequence annotation: -35 box
sequence: https://synbiohub.org/public/igem/BBa_K823000_sequence/1

PliaG
type: SequenceAnnotation
persistent identity: annotation2182553
display id: annotation2182553
version: 1
top level: BBa_K823000
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823000/annotation2182553/range2182553/1

https://synbiohub.org/public/igem/BBa_K823000/annotation2182553/range2182553/1
type: Range
persistent identity: range2182553
display id: range2182553
version: 1
direction: direction/forward
top level: BBa_K823000
start: 1
end: 121
orientation: inline

-10 box
type: SequenceAnnotation
persistent identity: annotation2182555
display id: annotation2182555
version: 1
top level: BBa_K823000
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K823000/annotation2182555/range2182555/1

https://synbiohub.org/public/igem/BBa_K823000/annotation2182555/range2182555/1
type: Range
persistent identity: range2182555
display id: range2182555
version: 1
direction: direction/forward
top level: BBa_K823000
start: 105
end: 110
orientation: inline

-35 box
type: SequenceAnnotation
persistent identity: annotation2182554
display id: annotation2182554
version: 1
top level: BBa_K823000
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K823000/annotation2182554/range2182554/1

https://synbiohub.org/public/igem/BBa_K823000/annotation2182554/range2182554/1
type: Range
persistent identity: range2182554
display id: range2182554
version: 1
direction: direction/forward
top level: BBa_K823000
start: 81
end: 86
orientation: inline

Pxyl-gsiB
type: ComponentDefinition
persistent identity: BBa K143056
display id: BBa_K143056
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter xyl and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-10-07T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Inducible promoter xyl( BBa_K143014 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. Pxyl-gsiB can be used to take an input of xylose and give a '''Ribosomes per second''' (RiPS) output generator. Xylose does not directly induce the expression of the promoter xyl, but requires the transcriptional regulator '''XylR''', ( BBa_K143036 ). This means that XylR must be constitutively expressed in ''B.subtilis'' in order to use the promoter hyper-spank as an inducible promoter. XylR is naturally expressed by ''B. subtilis'' but should be upregulated to increase efficiency. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter xyl and RBS-gsiB were obtained from papers1 2 3 and the sequence synthesised by GeneArt
mutable provenance: Pxyl-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143014
component: BBa_K143020
sequence annotation: BBa_K143020
sequence annotation: BBa_K143014
sequence: https://synbiohub.org/public/igem/BBa_K143056_sequence/1

BBa_K143014
type: Component
persistent identity: component1979416
display id: component1979416
version: 1
top level: Pxyl-gsiB
access: public
definition: Pxyl

BBa_K143020
type: Component
persistent identity: component1979418
display id: component1979418
version: 1
top level: Pxyl-gsiB
access: public
definition: RBS-GsiB

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1979418
display id: annotation1979418
version: 1
top level: Pxyl-gsiB
location: https://synbiohub.org/public/igem/BBa_K143056/annotation1979418/range1979418/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143056/annotation1979418/range1979418/1
type: Range
persistent identity: range1979418
display id: range1979418
version: 1
direction: direction/reverse
top level: Pxyl-gsiB
start: 91
end: 101
orientation: inline

BBa_K143014
type: SequenceAnnotation
persistent identity: annotation1979416
display id: annotation1979416
version: 1
top level: Pxyl-gsiB
location: https://synbiohub.org/public/igem/BBa_K143056/annotation1979416/range1979416/1
component: BBa_K143014

https://synbiohub.org/public/igem/BBa_K143056/annotation1979416/range1979416/1
type: Range
persistent identity: range1979416
display id: range1979416
version: 1
direction: direction/reverse
top level: Pxyl-gsiB
start: 1
end: 82
orientation: inline

BBa_K2057001
type: ComponentDefinition
persistent identity: BBa K2057001
display id: BBa_K2057001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter BtI-BtII
creator: Uriel Eleazar Barboza P??rez
created: 2016-10-13T11:00:00Z
modified: 2016-10-21T12:09:31Z
discontinued: false
dominant: false
experience: experience/None
group u list: _2525_
m user id: 30590
owner id: 21127
owning group id: 9
status: status/Planning
bookmark: false
mutable description: This is a dual strong promoter that control the expression of Cry1Ac proteins in Bacillus thuringiensis, but it is expressed constitutively in Escherichia coli. This promoter can control the expression of genes that need to be expressed in a constitutive way in E. coli.
mutable notes: We amplified the promoter from the cry1Ac gene and include restriction sites not found inside the sequence but compatible with the prefix and suffix of the pSB1C3
mutable provenance: Promoter Bti-BtII of the cry1Ac gene is found on a megaplasmid of Bacillus thuringiensis subsp. kurstaki HD73
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
sequence annotation: RBS
sequence annotation: BtII (-10)
sequence annotation: BtI (-35)
sequence annotation: BtI (-10)
sequence: https://synbiohub.org/public/igem/BBa_K2057001_sequence/1

RBS
type: SequenceAnnotation
persistent identity: annotation2513453
display id: annotation2513453
version: 1
top level: BBa_K2057001
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K2057001/annotation2513453/range2513453/1

https://synbiohub.org/public/igem/BBa_K2057001/annotation2513453/range2513453/1
type: Range
persistent identity: range2513453
display id: range2513453
version: 1
direction: direction/forward
top level: BBa_K2057001
start: 377
end: 381
orientation: inline

BtII (-10)
type: SequenceAnnotation
persistent identity: annotation2513451
display id: annotation2513451
version: 1
top level: BBa_K2057001
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K2057001/annotation2513451/range2513451/1

https://synbiohub.org/public/igem/BBa_K2057001/annotation2513451/range2513451/1
type: Range
persistent identity: range2513451
display id: range2513451
version: 1
direction: direction/forward
top level: BBa_K2057001
start: 294
end: 302
orientation: inline

BtI (-35)
type: SequenceAnnotation
persistent identity: annotation2513450
display id: annotation2513450
version: 1
top level: BBa_K2057001
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K2057001/annotation2513450/range2513450/1

https://synbiohub.org/public/igem/BBa_K2057001/annotation2513450/range2513450/1
type: Range
persistent identity: range2513450
display id: range2513450
version: 1
direction: direction/forward
top level: BBa_K2057001
start: 285
end: 291
orientation: inline

BtI (-10)
type: SequenceAnnotation
persistent identity: annotation2513452
display id: annotation2513452
version: 1
top level: BBa_K2057001
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K2057001/annotation2513452/range2513452/1

https://synbiohub.org/public/igem/BBa_K2057001/annotation2513452/range2513452/1
type: Range
persistent identity: range2513452
display id: range2513452
version: 1
direction: direction/forward
top level: BBa_K2057001
start: 306
end: 313
orientation: inline

BBa_K302003
type: ComponentDefinition
persistent identity: BBa K302003
display id: BBa_K302003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P_hyperspankoid
creator: Rachel May Boyd, Phil Hall and Jem Stach
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _442_
m user id: 0
owner id: 6014
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: Promoter Hyperspankoid for ''B.subtilis'' adapted pspac-oid and hyperspank
mutable notes: We used pspacoid and the spacing of the repeat from hyperspank.
mutable provenance: Combining oid sequence (palindromic) with hyperspank.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: pspac promoter
sequence annotation: oid - Lac operator
sequence: https://synbiohub.org/public/igem/BBa_K302003_sequence/1

pspac promoter
type: SequenceAnnotation
persistent identity: annotation2091501
display id: annotation2091501
version: 1
top level: BBa_K302003
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K302003/annotation2091501/range2091501/1

https://synbiohub.org/public/igem/BBa_K302003/annotation2091501/range2091501/1
type: Range
persistent identity: range2091501
display id: range2091501
version: 1
direction: direction/forward
top level: BBa_K302003
start: 43
end: 80
orientation: inline

oid - Lac operator
type: SequenceAnnotation
persistent identity: annotation2091499
display id: annotation2091499
version: 1
top level: BBa_K302003
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K302003/annotation2091499/range2091499/1

https://synbiohub.org/public/igem/BBa_K302003/annotation2091499/range2091499/1
type: Range
persistent identity: range2091499
display id: range2091499
version: 1
direction: direction/forward
top level: BBa_K302003
start: 11
end: 30
orientation: inline

oid - Lac operator
type: SequenceAnnotation
persistent identity: annotation2091500
display id: annotation2091500
version: 1
top level: BBa_K302003
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K302003/annotation2091500/range2091500/1

https://synbiohub.org/public/igem/BBa_K302003/annotation2091500/range2091500/1
type: Range
persistent identity: range2091500
display id: range2091500
version: 1
direction: direction/forward
top level: BBa_K302003
start: 81
end: 100
orientation: inline

BBa_K1364013
type: ComponentDefinition
persistent identity: BBa K1364013
display id: BBa_K1364013
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg - RBS - Antifungal GAFP-1 - RBS - Antifungal D4E1 - Double terminator
creator: Aur??lie Kanitzer
created: 2014-09-30T11:00:00Z
modified: 2015-06-08T08:36:54Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21466
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: The Gastrodia anti-fungal protein (GAFP-1) is a mannose-binding lectin which is able to inhibit the growth of multiples species of plant pathogenic fungi. D4E1 is a linear synthetic peptide of 17 amino acids which has shown to have antifungal activities by complexing with a sterol present in conidia's wall of a variety of fungi. The RBS used is a strong RBS for Bacillus subtilis (K780002).
mutable notes: This part is designed for the co-expression of two different peptides with anti-fungal activities : D4E1 and GAFP-1. It is composed of the strong, constitutive promotor of B. subtilis Pveg (K823003) and the translation unit with GAFP-1 and D4E1 (BBa_K1364012). http://2014.igem.org/wiki/images/4/40/BBa_K1364013.png
mutable provenance: This part results from the association of BBa_K823003, BBa_K1364002 and BBa_K1364003.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K823003
component: BBa_K1364002
component: BBa_K1364003
sequence annotation: BBa_K1364003
sequence annotation: BBa_K823003
sequence annotation: BBa_K1364002
sequence: https://synbiohub.org/public/igem/BBa_K1364013_sequence/1

BBa_K823003
type: Component
persistent identity: component2391496
display id: component2391496
version: 1
top level: BBa_K1364013
access: public
definition: BBa_K823003

BBa_K1364002
type: Component
persistent identity: component2391501
display id: component2391501
version: 1
top level: BBa_K1364013
access: public
definition: GAFP-1

BBa_K1364003
type: Component
persistent identity: component2391507
display id: component2391507
version: 1
top level: BBa_K1364013
access: public
definition: D4E1

BBa_K1364003
type: SequenceAnnotation
persistent identity: annotation2391507
display id: annotation2391507
version: 1
top level: BBa_K1364013
location: https://synbiohub.org/public/igem/BBa_K1364013/annotation2391507/range2391507/1
component: BBa_K1364003

https://synbiohub.org/public/igem/BBa_K1364013/annotation2391507/range2391507/1
type: Range
persistent identity: range2391507
display id: range2391507
version: 1
direction: direction/reverse
top level: BBa_K1364013
start: 441
end: 762
orientation: inline

BBa_K823003
type: SequenceAnnotation
persistent identity: annotation2391496
display id: annotation2391496
version: 1
top level: BBa_K1364013
location: https://synbiohub.org/public/igem/BBa_K1364013/annotation2391496/range2391496/1
component: BBa_K823003

https://synbiohub.org/public/igem/BBa_K1364013/annotation2391496/range2391496/1
type: Range
persistent identity: range2391496
display id: range2391496
version: 1
direction: direction/reverse
top level: BBa_K1364013
start: 1
end: 237
orientation: inline

BBa_K1364002
type: SequenceAnnotation
persistent identity: annotation2391501
display id: annotation2391501
version: 1
top level: BBa_K1364013
location: https://synbiohub.org/public/igem/BBa_K1364013/annotation2391501/range2391501/1
component: BBa_K1364002

https://synbiohub.org/public/igem/BBa_K1364013/annotation2391501/range2391501/1
type: Range
persistent identity: range2391501
display id: range2391501
version: 1
direction: direction/reverse
top level: BBa_K1364013
start: 246
end: 432
orientation: inline

BBa_K1085003
type: ComponentDefinition
persistent identity: BBa K1085003
display id: BBa_K1085003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SpiderSilkSubunitE2 Strep-tag
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:09:12Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitE2) and a Strep-tag behind it. SubunitE2 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to minimize the number of restriction sites, and the tetrary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS. The amino acid sequence is based on the adapted MaSp2 sequences discribed in the paper of Brooks et. al. 2008. The Strep-tag, fused at the C terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: strep
sequence annotation: spidersilk subunit E2
sequence: https://synbiohub.org/public/igem/BBa_K1085003_sequence/1

strep
type: SequenceAnnotation
persistent identity: annotation2339045
display id: annotation2339045
version: 1
top level: BBa_K1085003
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085003/annotation2339045/range2339045/1

https://synbiohub.org/public/igem/BBa_K1085003/annotation2339045/range2339045/1
type: Range
persistent identity: range2339045
display id: range2339045
version: 1
direction: direction/forward
top level: BBa_K1085003
start: 229
end: 252
orientation: inline

spidersilk subunit E2
type: SequenceAnnotation
persistent identity: annotation2339046
display id: annotation2339046
version: 1
top level: BBa_K1085003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085003/annotation2339046/range2339046/1

https://synbiohub.org/public/igem/BBa_K1085003/annotation2339046/range2339046/1
type: Range
persistent identity: range2339046
display id: range2339046
version: 1
direction: direction/forward
top level: BBa_K1085003
start: 1
end: 210
orientation: inline

BBa_K1399007
type: ComponentDefinition
persistent identity: BBa K1399007
display id: BBa_K1399007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP (mut3b) with SsrA-DAS+2 degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP (mut3b) (see part BBa_E0040) with added engineered NYADAS-ssrA degradation tag (see part BBa_M0050). The tag increases GFP turn-over rate, thus providing better temporal resolution of green fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. SsrA tags encode peptide sequence that and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The NYADAS tag encodes peptide sequence AANDENYNYDAS is reported to have low affinity to ClpX thus its mediated degradation very much depends on the concentration of SspB (ClpX mediator).[1] The two additional residues ???NY??? extends tag between SspB and ClpX binding site, thus preventing clash when both these protein are bound to tag.[3] However, be aware that exact protein degradation rate is influenced by multiple other factors: ClpXP and ClpAP protease concentrations, protein stability, Km of binding to the protease, temperature [4]. ===References=== [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] McGinness, K. E., Baker, T. a & Sauer, R. T. Engineering controllable protein degradation. Mol. Cell 22, 701???7 (2006). [4] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to GFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additional residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (DAS in this case) are recognized by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: GFP comes from part BBa_E0040, the tag sequence was obtained from part BBa_M0051.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: GFP (mut3b)
sequence annotation: NYADAS-ssrA
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399007_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383926
display id: annotation2383926
version: 1
top level: BBa_K1399007
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399007/annotation2383926/range2383926/1

https://synbiohub.org/public/igem/BBa_K1399007/annotation2383926/range2383926/1
type: Range
persistent identity: range2383926
display id: range2383926
version: 1
direction: direction/forward
top level: BBa_K1399007
start: 754
end: 756
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383927
display id: annotation2383927
version: 1
top level: BBa_K1399007
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399007/annotation2383927/range2383927/1

https://synbiohub.org/public/igem/BBa_K1399007/annotation2383927/range2383927/1
type: Range
persistent identity: range2383927
display id: range2383927
version: 1
direction: direction/forward
top level: BBa_K1399007
start: 757
end: 759
orientation: inline

GFP (mut3b)
type: SequenceAnnotation
persistent identity: annotation2383924
display id: annotation2383924
version: 1
top level: BBa_K1399007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399007/annotation2383924/range2383924/1

https://synbiohub.org/public/igem/BBa_K1399007/annotation2383924/range2383924/1
type: Range
persistent identity: range2383924
display id: range2383924
version: 1
direction: direction/forward
top level: BBa_K1399007
start: 4
end: 714
orientation: inline

NYADAS-ssrA
type: SequenceAnnotation
persistent identity: annotation2383925
display id: annotation2383925
version: 1
top level: BBa_K1399007
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399007/annotation2383925/range2383925/1

https://synbiohub.org/public/igem/BBa_K1399007/annotation2383925/range2383925/1
type: Range
persistent identity: range2383925
display id: range2383925
version: 1
direction: direction/forward
top level: BBa_K1399007
start: 715
end: 753
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383923
display id: annotation2383923
version: 1
top level: BBa_K1399007
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399007/annotation2383923/range2383923/1

https://synbiohub.org/public/igem/BBa_K1399007/annotation2383923/range2383923/1
type: Range
persistent identity: range2383923
display id: range2383923
version: 1
direction: direction/forward
top level: BBa_K1399007
start: 1
end: 3
orientation: inline

BBa_K090403
type: ComponentDefinition
persistent identity: BBa K090403
display id: BBa_K090403
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Gram-positive Shuttle Vector for Chromosomal Integration
creator: Daniel Goodman
created: 2008-10-29T12:00:00Z
modified: 2015-05-08T01:08:37Z
discontinued: false
dominant: false
experience: experience/None
group u list: _188_
m user id: 0
owner id: 3501
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This is pBSINT1, a BioBrick-compatible Shuttle Vector that allows for single-copy chromosomal insertion into Bacillus subtilis. It contains the replication origin and Biobrick cut site from pSB1A3 for normal replication in E. coli. It also holds the 5' and 3' flanking regions of the AmyE gene in Bacillus subtilis, and uses these regions of homology to integrate and replace the contents of that locus on the chromosome via a double crossover event. It has two selectable resistance markers, one for Chloramphenicol (5??g/ml) in Bacillus subtiis, and one for Ampicillin (100 ??g/ml) in E. coli. This vector can be used to construct large BioBrick parts using traditional gram-negative-based transformation and minipreps, and then also be used to integrate the completed part into the genome of a gram-positive chassis. As the figure explains, this vector was made via InFusion assembly from several pieces at once. For a detailed protocol of transformation in Bacillus and how to detect integration events at the AmyE locus, see the Cambridge iGEM 2008 wiki protocols page: [http://2008.igem.org/Team:Cambridge/Bacillus_subtilis_transformation]
mutable notes: We attempted to design the PCR ends to not interfere with the AmyE flanking regions, and also to have the same annealing temperatures. To see the primers we used, see our Primer page under the Bacillus subproject: [http://2008.igem.org/Team:Cambridge/Bacillus/Primers]
mutable provenance: As explained in the image, this vector was assembled at once from 4 separate pieces. The green and red regions (biobrick cut site and E. coli replication/Amp resistance) come from PBS1A3. The blue pieces are the flanking AmyE regions from ECE112, which was obtained via the Bacillus Genetic Stock Center.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
sequence annotation: beta-lactamase (ampR) promoter
sequence annotation: amyE back; partial alpha-amylase; similar to Genbank U46196
sequence annotation: beta-lactamase (ampicillin resistance)
sequence annotation: BioBrick prefix
sequence annotation: BioBrick suffix
sequence annotation: chloramphenicol acetyltransferase
sequence annotation: pBR322 origin
sequence: https://synbiohub.org/public/igem/BBa_K090403_sequence/1

beta-lactamase (ampR) promoter
type: SequenceAnnotation
persistent identity: annotation1999624
display id: annotation1999624
version: 1
top level: BBa_K090403
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999624/range1999624/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999624/range1999624/1
type: Range
persistent identity: range1999624
display id: range1999624
version: 1
direction: direction/reverse
top level: BBa_K090403
start: 4746
end: 4774
orientation: inline

amyE back; partial alpha-amylase; similar to Genbank U46196
type: SequenceAnnotation
persistent identity: annotation1999621
display id: annotation1999621
version: 1
top level: BBa_K090403
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999621/range1999621/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999621/range1999621/1
type: Range
persistent identity: range1999621
display id: range1999621
version: 1
direction: direction/forward
top level: BBa_K090403
start: 1449
end: 2468
orientation: inline

beta-lactamase (ampicillin resistance)
type: SequenceAnnotation
persistent identity: annotation1999623
display id: annotation1999623
version: 1
top level: BBa_K090403
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999623/range1999623/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999623/range1999623/1
type: Range
persistent identity: range1999623
display id: range1999623
version: 1
direction: direction/reverse
top level: BBa_K090403
start: 3844
end: 4704
orientation: inline

BioBrick prefix
type: SequenceAnnotation
persistent identity: annotation1999619
display id: annotation1999619
version: 1
top level: BBa_K090403
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999619/range1999619/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999619/range1999619/1
type: Range
persistent identity: range1999619
display id: range1999619
version: 1
direction: direction/forward
top level: BBa_K090403
start: 1
end: 21
orientation: inline

BioBrick suffix
type: SequenceAnnotation
persistent identity: annotation1999625
display id: annotation1999625
version: 1
top level: BBa_K090403
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999625/range1999625/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999625/range1999625/1
type: Range
persistent identity: range1999625
display id: range1999625
version: 1
direction: direction/forward
top level: BBa_K090403
start: 5611
end: 5632
orientation: inline

chloramphenicol acetyltransferase
type: SequenceAnnotation
persistent identity: annotation1999620
display id: annotation1999620
version: 1
top level: BBa_K090403
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999620/range1999620/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999620/range1999620/1
type: Range
persistent identity: range1999620
display id: range1999620
version: 1
direction: direction/forward
top level: BBa_K090403
start: 419
end: 1069
orientation: inline

pBR322 origin
type: SequenceAnnotation
persistent identity: annotation1999622
display id: annotation1999622
version: 1
top level: BBa_K090403
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K090403/annotation1999622/range1999622/1

https://synbiohub.org/public/igem/BBa_K090403/annotation1999622/range1999622/1
type: Range
persistent identity: range1999622
display id: range1999622
version: 1
direction: direction/reverse
top level: BBa_K090403
start: 3070
end: 3689
orientation: inline

pSBBs1C
type: ComponentDefinition
persistent identity: BBa K823021
display id: BBa_K823021
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs1C-lacZ (lacZ reporter vector for B. subtilis)
creator: Jara Radeck
created: 2012-08-15T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 6378
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part is a backbone vector for Bacillus subtilis. It integrates at the amyE locus. It has a Ampicillin resistance for cloning in E.coli and Chloramphenicol resistance for B.subtilis. The multiple cloning site is followed by a lacZ gene for reporter assays. This BioBrick is part of the LMU 2012 igem project Bacillus BioBrick Box http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks
mutable notes: This reporter vector can be used with the normal BioBrick assembly strategies.
mutable provenance: This vector is the Bacillus vector pAC6 brought into the iGEM BioBrick standard.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: lacZ
sequence annotation: bla
sequence annotation: cat
sequence annotation: amyE'
sequence annotation: 'amyE
sequence: https://synbiohub.org/public/igem/BBa_K823021_sequence/1

lacZ
type: SequenceAnnotation
persistent identity: annotation2179602
display id: annotation2179602
version: 1
top level: pSBBs1C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823021/annotation2179602/range2179602/1

https://synbiohub.org/public/igem/BBa_K823021/annotation2179602/range2179602/1
type: Range
persistent identity: range2179602
display id: range2179602
version: 1
direction: direction/forward
top level: pSBBs1C
start: 49
end: 3112
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2179604
display id: annotation2179604
version: 1
top level: pSBBs1C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823021/annotation2179604/range2179604/1

https://synbiohub.org/public/igem/BBa_K823021/annotation2179604/range2179604/1
type: Range
persistent identity: range2179604
display id: range2179604
version: 1
direction: direction/forward
top level: pSBBs1C
start: 4023
end: 4883
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2179606
display id: annotation2179606
version: 1
top level: pSBBs1C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823021/annotation2179606/range2179606/1

https://synbiohub.org/public/igem/BBa_K823021/annotation2179606/range2179606/1
type: Range
persistent identity: range2179606
display id: range2179606
version: 1
direction: direction/reverse
top level: pSBBs1C
start: 8813
end: 9463
orientation: inline

amyE'
type: SequenceAnnotation
persistent identity: annotation2179603
display id: annotation2179603
version: 1
top level: pSBBs1C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823021/annotation2179603/range2179603/1

https://synbiohub.org/public/igem/BBa_K823021/annotation2179603/range2179603/1
type: Range
persistent identity: range2179603
display id: range2179603
version: 1
direction: direction/reverse
top level: pSBBs1C
start: 3165
end: 3698
orientation: inline

'amyE
type: SequenceAnnotation
persistent identity: annotation2179605
display id: annotation2179605
version: 1
top level: pSBBs1C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823021/annotation2179605/range2179605/1

https://synbiohub.org/public/igem/BBa_K823021/annotation2179605/range2179605/1
type: Range
persistent identity: range2179605
display id: range2179605
version: 1
direction: direction/reverse
top level: pSBBs1C
start: 7402
end: 8229
orientation: inline

D4E1
type: ComponentDefinition
persistent identity: BBa K1364009
display id: BBa_K1364009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg - RBS - Antifungal D4E1 - Double Terminator
creator: Jourdan Camille
created: 2014-09-24T11:00:00Z
modified: 2015-06-08T08:36:05Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: This expression cassette is designed for the expression of an antifugal peptide, D4E1, and for its secretion in Bacillus subtilis. D4E1 has shown antifungal activity by complexing with a streol present in condinia's wall of a variety of fungi. It is composed of a constituve promoter (K143012 Pveg), a RBS (K780002 strong RBS), the open reading frame of D4E1 and a double terminator (B0015).
mutable notes: The coding sequence of D4E1 is flanked on the N-terminal end with a signal peptide (amyE signal peptide) followed by a pro peptide, cleaved during the secretion process.
mutable provenance: De Lucca AJ,??Bland JM,??Grimm C,??Jacks TJ,??Cary JW,??Jaynes JM,??Cleveland TE,??Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1. Can J Microbiol.??1998 Jun;44(6):514-20.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K1364003
component: BBa_K823003
sequence annotation: BBa_K1364003
sequence annotation: BBa_K823003
sequence: https://synbiohub.org/public/igem/BBa_K1364009_sequence/1

BBa_K1364003
type: Component
persistent identity: component2386395
display id: component2386395
version: 1
top level: D4E1
access: public
definition: D4E1

BBa_K823003
type: Component
persistent identity: component2386389
display id: component2386389
version: 1
top level: D4E1
access: public
definition: BBa_K823003

BBa_K1364003
type: SequenceAnnotation
persistent identity: annotation2386395
display id: annotation2386395
version: 1
top level: D4E1
location: https://synbiohub.org/public/igem/BBa_K1364009/annotation2386395/range2386395/1
component: BBa_K1364003

https://synbiohub.org/public/igem/BBa_K1364009/annotation2386395/range2386395/1
type: Range
persistent identity: range2386395
display id: range2386395
version: 1
direction: direction/reverse
top level: D4E1
start: 246
end: 567
orientation: inline

BBa_K823003
type: SequenceAnnotation
persistent identity: annotation2386389
display id: annotation2386389
version: 1
top level: D4E1
location: https://synbiohub.org/public/igem/BBa_K1364009/annotation2386389/range2386389/1
component: BBa_K823003

https://synbiohub.org/public/igem/BBa_K1364009/annotation2386389/range2386389/1
type: Range
persistent identity: range2386389
display id: range2386389
version: 1
direction: direction/reverse
top level: D4E1
start: 1
end: 237
orientation: inline

BBa_K1399006
type: ComponentDefinition
persistent identity: BBa K1399006
display id: BBa_K1399006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP (mut3b) with LAA-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP (mut3b) (see part BBa_E0040) with added LAA-ssrA degradation tag (see part BBa_M0050). The tag increases GFP turn-over rate, thus providing better temporal resolution of green fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes E.coli wild type ssrA peptide sequence AANDENYALAA and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The LAA tag is reported to lead to fast protein degradation, degrading GFP with rate -0.018 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease and SspB mediator concentrations, protein stability, Km of binding to the protease, temperature [3]. ===References=== [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to GFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additional residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (LAA in this case) are recognized by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: GFP comes from part BBa_E1010, the tag sequence was obtained from part BBa_M0050.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: start
sequence annotation: stop
sequence annotation: GFP (mut3b)
sequence annotation: LAA-ssrA
sequence: https://synbiohub.org/public/igem/BBa_K1399006_sequence/1

start
type: SequenceAnnotation
persistent identity: annotation2383918
display id: annotation2383918
version: 1
top level: BBa_K1399006
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399006/annotation2383918/range2383918/1

https://synbiohub.org/public/igem/BBa_K1399006/annotation2383918/range2383918/1
type: Range
persistent identity: range2383918
display id: range2383918
version: 1
direction: direction/forward
top level: BBa_K1399006
start: 1
end: 3
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383921
display id: annotation2383921
version: 1
top level: BBa_K1399006
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399006/annotation2383921/range2383921/1

https://synbiohub.org/public/igem/BBa_K1399006/annotation2383921/range2383921/1
type: Range
persistent identity: range2383921
display id: range2383921
version: 1
direction: direction/forward
top level: BBa_K1399006
start: 748
end: 750
orientation: inline

GFP (mut3b)
type: SequenceAnnotation
persistent identity: annotation2383919
display id: annotation2383919
version: 1
top level: BBa_K1399006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399006/annotation2383919/range2383919/1

https://synbiohub.org/public/igem/BBa_K1399006/annotation2383919/range2383919/1
type: Range
persistent identity: range2383919
display id: range2383919
version: 1
direction: direction/forward
top level: BBa_K1399006
start: 4
end: 714
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383922
display id: annotation2383922
version: 1
top level: BBa_K1399006
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399006/annotation2383922/range2383922/1

https://synbiohub.org/public/igem/BBa_K1399006/annotation2383922/range2383922/1
type: Range
persistent identity: range2383922
display id: range2383922
version: 1
direction: direction/forward
top level: BBa_K1399006
start: 751
end: 753
orientation: inline

LAA-ssrA
type: SequenceAnnotation
persistent identity: annotation2383920
display id: annotation2383920
version: 1
top level: BBa_K1399006
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399006/annotation2383920/range2383920/1

https://synbiohub.org/public/igem/BBa_K1399006/annotation2383920/range2383920/1
type: Range
persistent identity: range2383920
display id: range2383920
version: 1
direction: direction/forward
top level: BBa_K1399006
start: 715
end: 747
orientation: inline

BBa_K1085010
type: ComponentDefinition
persistent identity: BBa K1085010
display id: BBa_K1085010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon EstA Strep-tag SpiderSilkSubunitE1
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:09:30Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitE1) with a Bacillus Subtilis ribosome binding site (RBS), a coding sequence for the signal protein EstA and a Strep-tag infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. The EstA codes for a signal protein that that is there to fasilitate secretion of the protein. The Strep-tag, fused at the N terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin. SubunitE1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites. The amino acid sequence is based on the adapted MaSp2 sequences discribed in the paper of Brooks et. al. 2008.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acid sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: RBS
sequence annotation: estA (Bac. sub.)
sequence annotation: strep
sequence annotation: spidersilk subunit E1
sequence annotation: starting codon (ATG)
sequence: https://synbiohub.org/public/igem/BBa_K1085010_sequence/1

RBS
type: SequenceAnnotation
persistent identity: annotation2339063
display id: annotation2339063
version: 1
top level: BBa_K1085010
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1085010/annotation2339063/range2339063/1

https://synbiohub.org/public/igem/BBa_K1085010/annotation2339063/range2339063/1
type: Range
persistent identity: range2339063
display id: range2339063
version: 1
direction: direction/forward
top level: BBa_K1085010
start: 1
end: 6
orientation: inline

estA (Bac. sub.)
type: SequenceAnnotation
persistent identity: annotation2339064
display id: annotation2339064
version: 1
top level: BBa_K1085010
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085010/annotation2339064/range2339064/1

https://synbiohub.org/public/igem/BBa_K1085010/annotation2339064/range2339064/1
type: Range
persistent identity: range2339064
display id: range2339064
version: 1
direction: direction/forward
top level: BBa_K1085010
start: 17
end: 649
orientation: inline

strep
type: SequenceAnnotation
persistent identity: annotation2339066
display id: annotation2339066
version: 1
top level: BBa_K1085010
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085010/annotation2339066/range2339066/1

https://synbiohub.org/public/igem/BBa_K1085010/annotation2339066/range2339066/1
type: Range
persistent identity: range2339066
display id: range2339066
version: 1
direction: direction/forward
top level: BBa_K1085010
start: 656
end: 679
orientation: inline

spidersilk subunit E1
type: SequenceAnnotation
persistent identity: annotation2339067
display id: annotation2339067
version: 1
top level: BBa_K1085010
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085010/annotation2339067/range2339067/1

https://synbiohub.org/public/igem/BBa_K1085010/annotation2339067/range2339067/1
type: Range
persistent identity: range2339067
display id: range2339067
version: 1
direction: direction/forward
top level: BBa_K1085010
start: 698
end: 907
orientation: inline

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2362247
display id: annotation2362247
version: 1
top level: BBa_K1085010
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085010/annotation2362247/range2362247/1

https://synbiohub.org/public/igem/BBa_K1085010/annotation2362247/range2362247/1
type: Range
persistent identity: range2362247
display id: range2362247
version: 1
direction: direction/forward
top level: BBa_K1085010
start: 14
end: 16
orientation: inline

BBa_K1351018
type: ComponentDefinition
persistent identity: BBa K1351018
display id: BBa_K1351018
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter for the sdpIR operon
creator: Philipp Popp & Roman Herzog
created: 2014-09-14T11:00:00Z
modified: 2015-06-01T08:14:47Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1726_
m user id: 4206
owner id: 20046
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Biobrick flanked Promoter sequence. The Promoter regulates the sdpI (immunity against the cannibalism toxin sdpC) and the regulator sdpR in bacillus subtilis.
mutable notes: No
mutable provenance: Bacillus subtilis gDNA (W168)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K1351018_sequence/1

EpsE
type: ComponentDefinition
persistent identity: BBa K143032
display id: BBa_K143032
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: EpsE Molecular Clutch Gene of B. subtilis
creator: Chris Hirst
created: 2008-09-17T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: The epsE gene of the exopolysaccharide synthesis operon of ''B. subtilis'' has been suggested to function in a manor similar to a molecular clutch#1. If expressed inside a cell it will prevent flagellar movement causing the cell to no longer be able to swim effectively and instead only tumble. As such EpsE could potentially be used as a controller of ''B. subtilis'' movement. Though the EPS operon is normally repressed in ''B. subtilis'', if EpsE is synthetically expressed it would be beneficial for the original copy of epsE to be knocked out. This can be achieved by integrating over the EesE gene with the epsE integration Biobricks ( BBa_K143005 and BBa_K143006 ) which contain 2 in-frame stop codons. Although many bacterial flaggelar assemblies contain proteins that are similar in shape, there is no guarantee that the epsE gene will function correctly in any host cell other than ''B. subtilis''
mutable notes: The epsE(aka yveO) sequence was located in the ''B. subtilis'' chromosome#1 and the ''Pst''I restriction site removed before synthesis by GeneArt
mutable provenance: The epsE gene sequence was taken from the ''B. subtilis'' chromosome and was synthesised by GeneArt.
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: start
sequence annotation: EpsE Molecular Clutch Gene
sequence: https://synbiohub.org/public/igem/BBa_K143032_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation1992701
display id: annotation1992701
version: 1
top level: EpsE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143032/annotation1992701/range1992701/1

https://synbiohub.org/public/igem/BBa_K143032/annotation1992701/range1992701/1
type: Range
persistent identity: range1992701
display id: range1992701
version: 1
direction: direction/forward
top level: EpsE
start: 835
end: 837
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992699
display id: annotation1992699
version: 1
top level: EpsE
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143032/annotation1992699/range1992699/1

https://synbiohub.org/public/igem/BBa_K143032/annotation1992699/range1992699/1
type: Range
persistent identity: range1992699
display id: range1992699
version: 1
direction: direction/forward
top level: EpsE
start: 1
end: 3
orientation: inline

EpsE Molecular Clutch Gene
type: SequenceAnnotation
persistent identity: annotation1976430
display id: annotation1976430
version: 1
top level: EpsE
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143032/annotation1976430/range1976430/1

https://synbiohub.org/public/igem/BBa_K143032/annotation1976430/range1976430/1
type: Range
persistent identity: range1976430
display id: range1976430
version: 1
direction: direction/forward
top level: EpsE
start: 1
end: 834
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992700
display id: annotation1992700
version: 1
top level: EpsE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143032/annotation1992700/range1992700/1

https://synbiohub.org/public/igem/BBa_K143032/annotation1992700/range1992700/1
type: Range
persistent identity: range1992700
display id: range1992700
version: 1
direction: direction/forward
top level: EpsE
start: 838
end: 840
orientation: inline

BBa_K1351003
type: ComponentDefinition
persistent identity: BBa K1351003
display id: BBa_K1351003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Laminin-derived peptide binding to NADH Oxidase of S. pneumoniae
creator: Mona Dotzler
created: 2014-10-02T11:00:00Z
modified: 2015-06-01T12:53:36Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Short peptide of 9 amino acids corresponding to amino acids 661 to 668 of the human protein Laminin (subunit alpha-5, UniProt [http://www.uniprot.org/uniprot/O15230 O15230]). It has been shown to bind to NADH oxidase (NOX) of ''Streptococcus pneumoniae'' and inhibit bacterial binding to human A549 cells (Muchnik ''et. al.'', 2013). Displayed on the surface of ''Bacillus subtilis'', it should enable ''B. subtilis'' to bind specifically to ''S. pneumoniae''. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: For generation of the part's nucleotide sequence, the amino acid sequence of the peptide (Muchnik et. al., 2013) was reverse transcribed with regard to the codon usage of Bacillus subtilis. Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
mutable provenance: The part was generated by annealing of artificially synthesized oligonucletides: L5P_ENX_SD_Ngo_precutEP_fwd: AATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG TGTCAAGAATGTTCACCGGGATTT ACCGGTtaatACTAGTagcggccgCTGCA L5P_SNP_Age_precutEP_rev: GcggccgctACTAGTattaACCGGT AAATCCCGGTGAACATTCTTGACA CATGCCGGCttcctccttacTCTAGAagcggccgcG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351003_sequence/1

BBa_K302000
type: ComponentDefinition
persistent identity: BBa K302000
display id: BBa_K302000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: rocF RBS and coding sequence
creator: Alan Koh, Steven Woodhouse, Harsh Sheth
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: BioBrick-compatible ''rocF'' coding sequence, which codes for the enzyme arginase.
mutable notes: Removal of two EcoR1 sites.
mutable provenance: ''Bacillus subtilis'' 168 genome.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Translational Unit
role: SO:0000804
sequence annotation: Single base mutation to remove EcoR1 site
sequence annotation: start
sequence annotation: Double stop
sequence: https://synbiohub.org/public/igem/BBa_K302000_sequence/1

Single base mutation to remove EcoR1 site
type: SequenceAnnotation
persistent identity: annotation2077770
display id: annotation2077770
version: 1
top level: BBa_K302000
role: SO:0001059
role: feature/mutation
location: https://synbiohub.org/public/igem/BBa_K302000/annotation2077770/range2077770/1

https://synbiohub.org/public/igem/BBa_K302000/annotation2077770/range2077770/1
type: Range
persistent identity: range2077770
display id: range2077770
version: 1
direction: direction/forward
top level: BBa_K302000
start: 227
end: 227
orientation: inline

Single base mutation to remove EcoR1 site
type: SequenceAnnotation
persistent identity: annotation2077771
display id: annotation2077771
version: 1
top level: BBa_K302000
role: SO:0001059
role: feature/mutation
location: https://synbiohub.org/public/igem/BBa_K302000/annotation2077771/range2077771/1

https://synbiohub.org/public/igem/BBa_K302000/annotation2077771/range2077771/1
type: Range
persistent identity: range2077771
display id: range2077771
version: 1
direction: direction/forward
top level: BBa_K302000
start: 824
end: 824
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2077659
display id: annotation2077659
version: 1
top level: BBa_K302000
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K302000/annotation2077659/range2077659/1

https://synbiohub.org/public/igem/BBa_K302000/annotation2077659/range2077659/1
type: Range
persistent identity: range2077659
display id: range2077659
version: 1
direction: direction/forward
top level: BBa_K302000
start: 27
end: 29
orientation: inline

Double stop
type: SequenceAnnotation
persistent identity: annotation2077660
display id: annotation2077660
version: 1
top level: BBa_K302000
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302000/annotation2077660/range2077660/1

https://synbiohub.org/public/igem/BBa_K302000/annotation2077660/range2077660/1
type: Range
persistent identity: range2077660
display id: range2077660
version: 1
direction: direction/forward
top level: BBa_K302000
start: 915
end: 919
orientation: inline

Pveg
type: ComponentDefinition
persistent identity: BBa K143012
display id: BBa_K143012
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter veg a constitutive promoter for B. subtilis
creator: James Chappell
created: 2008-09-10T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: true
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Pveg is a constitutive promoter that constitutively expresses the P43 protein in ''B.subtilis''. Pveg contains binding sites for the ''B.sutbilis'' major sigma factor#1. Pveg in ''B.subtilis'' utilises two binding sites to cause high expression of genes#2, however our Pveg is lacking the upstream site to give a medium level of gene expression. It has been noted that the sporulation master regulatoion factor spoOA interacts with Pveg though it is not known how#3. The context with which we used the promoter Pveg is as a '''Polymerase Per Second''' (PoPS) generator.
mutable notes: The biobrick part was designed to include a single binding site for the ''B.subtilis major sigma factor. In addition the biobrick standard was applied to the promoter Pveg sequence.
mutable provenance: The Pveg promoter was suggested to us by Dr. Jan-Willem Veening of Newcastle University. This sequence supplied was compared to that of the DBTBS database#3 then a section containing the binding site synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Sigma A-35
sequence annotation: Sigma A -10
sequence: https://synbiohub.org/public/igem/BBa_K143012_sequence/1

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation1975704
display id: annotation1975704
version: 1
top level: Pveg
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143012/annotation1975704/range1975704/1

https://synbiohub.org/public/igem/BBa_K143012/annotation1975704/range1975704/1
type: Range
persistent identity: range1975704
display id: range1975704
version: 1
direction: direction/forward
top level: Pveg
start: 63
end: 68
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation1975705
display id: annotation1975705
version: 1
top level: Pveg
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143012/annotation1975705/range1975705/1

https://synbiohub.org/public/igem/BBa_K143012/annotation1975705/range1975705/1
type: Range
persistent identity: range1975705
display id: range1975705
version: 1
direction: direction/forward
top level: Pveg
start: 86
end: 91
orientation: inline

BBa_K1351010
type: ComponentDefinition
persistent identity: BBa K1351010
display id: BBa_K1351010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Cell wall-anchoring domain of B. subtilis endonuclease YhcR
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:55:21Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Cell wall-anchoring domain (amino acids 1086 to 1217) of ''Bacillus subtilis'' endonuclease YhcR (UniProt [http://www.uniprot.org/uniprot/P54602 P54602]). YhcR is secreted and covalently anchored to the petidoglycan wall by the sortase YhcS. A YhcR-based surface display system has been shown to covalently anchor heterologous proteins to the ''B. subtilis'' cell wall (Liew ''et. al.'', 2012). It was used in the [http://2014.igem.org/Team:LMU-Munich/Project/Bakillus BaKillus project] to display pathogen-specific peptides and mediate adhesion of ''B. subtlis'' to pathogens. It consists of four components: the sortase substrate with a signal peptide ([http://parts.igem.org/Part:BBa_K1351008 BBa_K1351008]), a linker ([http://parts.igem.org/Part:BBa_K1351009 BBa_K1351009]) and a cell wall-anchoring domain (this part) as well as the sortase YhcS itself ([http://parts.igem.org/Part:BBa_K1351011 BBa_K1351011]), whose overexpression increases the efficiency of the surface display. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: none
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. CWAD_YhcR_ ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG GCTGAAGCCAGTGATATTGAAGACCC CWAD_YhcR_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT TCACGTTCTGGAGGCGCTC
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: LPDTS sorting signal
sequence: https://synbiohub.org/public/igem/BBa_K1351010_sequence/1

LPDTS sorting signal
type: SequenceAnnotation
persistent identity: annotation2394181
display id: annotation2394181
version: 1
top level: BBa_K1351010
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1351010/annotation2394181/range2394181/1

https://synbiohub.org/public/igem/BBa_K1351010/annotation2394181/range2394181/1
type: Range
persistent identity: range2394181
display id: range2394181
version: 1
direction: direction/forward
top level: BBa_K1351010
start: 292
end: 306
orientation: inline

BBa_K1085014
type: ComponentDefinition
persistent identity: BBa K1085014
display id: BBa_K1085014
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSB1AC3-HySp: Integrational backbone into B. subtilis amyE locus with IPTG inducible promoter
creator: S. P. van Kessel
created: 2013-09-10T11:00:00Z
modified: 2015-06-08T04:01:14Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16152
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: We used the amyE intergrational backbone form Munich 2012 (BBa_K823023) that had no promoter. We've added the Hy_Spank IPTG inducable promoter from Rudner's Lab 2004. The Hy_Spank promoter is right in front of the prefix so any biobrick can be inserted in this backbone.
mutable notes: In pDR111 the Hy_spank promoter and the lacI gene are orientated in the same direction. In order to have the Hy_spank promoter right in front of the prefix we turend the promoter around.
mutable provenance: iGEM Munich 2012 (Rudner Lab 2004) and Rudner's Lab 2004 (pDR111)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: amp
sequence annotation: lacI
sequence annotation: prefix
sequence annotation: cat
sequence annotation: lacO
sequence annotation: Hy_Spank
sequence annotation: suffix
sequence annotation: -10
sequence annotation: Term. (-12.8 kcals)
sequence annotation: amyE
sequence annotation: -35
sequence annotation: Term. (-14.4 kcals)
sequence: https://synbiohub.org/public/igem/BBa_K1085014_sequence/1

amp
type: SequenceAnnotation
persistent identity: annotation2338706
display id: annotation2338706
version: 1
top level: BBa_K1085014
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338706/range2338706/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338706/range2338706/1
type: Range
persistent identity: range2338706
display id: range2338706
version: 1
direction: direction/reverse
top level: BBa_K1085014
start: 4361
end: 5221
orientation: inline

lacI
type: SequenceAnnotation
persistent identity: annotation2338705
display id: annotation2338705
version: 1
top level: BBa_K1085014
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338705/range2338705/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338705/range2338705/1
type: Range
persistent identity: range2338705
display id: range2338705
version: 1
direction: direction/reverse
top level: BBa_K1085014
start: 6096
end: 7178
orientation: inline

prefix
type: SequenceAnnotation
persistent identity: annotation2338713
display id: annotation2338713
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338713/range2338713/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338713/range2338713/1
type: Range
persistent identity: range2338713
display id: range2338713
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7604
end: 7625
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2338707
display id: annotation2338707
version: 1
top level: BBa_K1085014
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338707/range2338707/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338707/range2338707/1
type: Range
persistent identity: range2338707
display id: range2338707
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 358
end: 1008
orientation: inline

lacO
type: SequenceAnnotation
persistent identity: annotation2338708
display id: annotation2338708
version: 1
top level: BBa_K1085014
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338708/range2338708/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338708/range2338708/1
type: Range
persistent identity: range2338708
display id: range2338708
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7497
end: 7516
orientation: inline

Hy_Spank
type: SequenceAnnotation
persistent identity: annotation2338702
display id: annotation2338702
version: 1
top level: BBa_K1085014
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338702/range2338702/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338702/range2338702/1
type: Range
persistent identity: range2338702
display id: range2338702
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7497
end: 7588
orientation: inline

suffix
type: SequenceAnnotation
persistent identity: annotation2338712
display id: annotation2338712
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338712/range2338712/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338712/range2338712/1
type: Range
persistent identity: range2338712
display id: range2338712
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 1
end: 21
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2338710
display id: annotation2338710
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338710/range2338710/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338710/range2338710/1
type: Range
persistent identity: range2338710
display id: range2338710
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7558
end: 7558
orientation: inline

lacO
type: SequenceAnnotation
persistent identity: annotation2338709
display id: annotation2338709
version: 1
top level: BBa_K1085014
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338709/range2338709/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338709/range2338709/1
type: Range
persistent identity: range2338709
display id: range2338709
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7568
end: 7588
orientation: inline

Term. (-12.8 kcals)
type: SequenceAnnotation
persistent identity: annotation2339050
display id: annotation2339050
version: 1
top level: BBa_K1085014
role: feature/stem loop
role: SO:0000313
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2339050/range2339050/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2339050/range2339050/1
type: Range
persistent identity: range2339050
display id: range2339050
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7435
end: 7462
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2338703
display id: annotation2338703
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338703/range2338703/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338703/range2338703/1
type: Range
persistent identity: range2338703
display id: range2338703
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 1379
end: 2407
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2338711
display id: annotation2338711
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338711/range2338711/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338711/range2338711/1
type: Range
persistent identity: range2338711
display id: range2338711
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 7533
end: 7533
orientation: inline

Term. (-14.4 kcals)
type: SequenceAnnotation
persistent identity: annotation2339027
display id: annotation2339027
version: 1
top level: BBa_K1085014
role: feature/stem loop
role: SO:0000313
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2339027/range2339027/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2339027/range2339027/1
type: Range
persistent identity: range2339027
display id: range2339027
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 314
end: 350
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2338704
display id: annotation2338704
version: 1
top level: BBa_K1085014
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085014/annotation2338704/range2338704/1

https://synbiohub.org/public/igem/BBa_K1085014/annotation2338704/range2338704/1
type: Range
persistent identity: range2338704
display id: range2338704
version: 1
direction: direction/forward
top level: BBa_K1085014
start: 5546
end: 6059
orientation: inline

BBa_K780003
type: ComponentDefinition
persistent identity: BBa K780003
display id: BBa_K780003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Strong constitutive promoter for Bacillus subtilis
creator: Elżbieta Jankowska
created: 2012-09-25T11:00:00Z
modified: 2015-05-08T01:13:18Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1034_
m user id: 0
owner id: 10113
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Strong constitutive promoter for Bacillus subtilis
mutable notes: -
mutable provenance: 'host-takover module' from B.subtilis Bacteriophage SPO1
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K780003_sequence/1

BBa_K1930002
type: ComponentDefinition
persistent identity: BBa K1930002
display id: BBa_K1930002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Encryption key sequence in integration plasmid (BBa_K823023)
creator: Eike Mahlandt
created: 2016-10-15T11:00:00Z
modified: 2016-10-17T09:00:28Z
discontinued: true
dominant: false
experience: experience/Works
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Deleted
bookmark: false
mutable description: The iGEM team Groningen 2016 worked on bioencryption in order to safely store data in DNA. In our project we were mainly working with two sequences of DNA which were the encrypted message sequence and the encryption key sequence. The key sequence was created by our software. It is therefore artificial DNA. We ordered the encrypted key sequence as gBlock from IDT (Integrated DNA technologies). This part was created in the interest of having a genomic integration plasmid with our key sequence. We used an available BioBrick BBa_K823023 from igem Munich 2012. It is an integration plasmid for Bacillus subtilis, which can be used for cloning in E. coli as well. An RFP is inserted in BBa_K823023 for more efficient screening after transformation.
mutable notes: The iGEM team Groningen 2016 worked on bioencryption in order to safely store data in DNA. In our project we were mainly working with two sequences of DNA which were the encrypted message sequence and the encryption key sequence. The key sequence was created by our software. It is therefore artificial DNA. We ordered the encrypted key sequence as gBlock from IDT (Integrated DNA technologies). This part was created in the interest of having a genomic integration plasmid with our key sequence. We used an available BioBrick BBa_K823023 from igem Munich 2012. It is an integration plasmid for Bacillus subtilis, which can be used for cloning in E. coli as well. An RFP is inserted in BBa_K823023 for more efficient screening after transformation.
mutable provenance: Key sequence: Created by our CryptoGErM software. http://2016.igem.org/Team:Groningen/Encoding BBa_K823023: Created by iGEM Munich 2012. http://parts.igem.org/Part:BBa_K823023
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
sequence annotation: bla
sequence annotation: key sequence
sequence annotation: BBa_K1930000
sequence annotation: amyE
sequence annotation: BBa_K823023
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_K1930002_sequence/1

bla
type: SequenceAnnotation
persistent identity: annotation2514193
display id: annotation2514193
version: 1
top level: BBa_K1930002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514193/range2514193/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514193/range2514193/1
type: Range
persistent identity: range2514193
display id: range2514193
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 4340
end: 5200
orientation: inline

key sequence
type: SequenceAnnotation
persistent identity: annotation2514195
display id: annotation2514195
version: 1
top level: BBa_K1930002
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514195/range2514195/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514195/range2514195/1
type: Range
persistent identity: range2514195
display id: range2514195
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 6063
end: 6206
orientation: inline

BBa_K1930000
type: SequenceAnnotation
persistent identity: annotation2514196
display id: annotation2514196
version: 1
top level: BBa_K1930002
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514196/range2514196/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514196/range2514196/1
type: Range
persistent identity: range2514196
display id: range2514196
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 6063
end: 6206
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2514192
display id: annotation2514192
version: 1
top level: BBa_K1930002
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514192/range2514192/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514192/range2514192/1
type: Range
persistent identity: range2514192
display id: range2514192
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 1358
end: 2386
orientation: inline

BBa_K823023
type: SequenceAnnotation
persistent identity: annotation2514190
display id: annotation2514190
version: 1
top level: BBa_K1930002
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514190/range2514190/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514190/range2514190/1
type: Range
persistent identity: range2514190
display id: range2514190
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 1
end: 6062
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2514191
display id: annotation2514191
version: 1
top level: BBa_K1930002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514191/range2514191/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514191/range2514191/1
type: Range
persistent identity: range2514191
display id: range2514191
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 337
end: 987
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2514194
display id: annotation2514194
version: 1
top level: BBa_K1930002
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930002/annotation2514194/range2514194/1

https://synbiohub.org/public/igem/BBa_K1930002/annotation2514194/range2514194/1
type: Range
persistent identity: range2514194
display id: range2514194
version: 1
direction: direction/forward
top level: BBa_K1930002
start: 5525
end: 6045
orientation: inline

BBa_K302005
type: ComponentDefinition
persistent identity: BBa K302005
display id: BBa_K302005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: yneA RBS and coding sequence
creator: Rachel May Boyd, Phil Hall, Deena Tsu, Jannetta Steyn
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _442_
m user id: 0
owner id: 6014
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: ''Bacillus subtilis'' in response to stress such as DNA damage stops the cells from dividing. This is a part of the SOS response initiated by the accumulation of single stranded DNA from DNA damage or stalled replication. Two proteins are vital for this response: RecA and LexA. RecA forms filaments on ssDNA and promotes the autocleavage of LexA. LexA usually represses the SOS operon. ''dinR'' is homologous to ''lexA'' in E. coli and is transcribed in the opposite direction of yneA. yneA stops the formation of ''ftsZ'' ring indirectly. When ''ftsZ'' forms a 30 subunit ring at the midpoint of the cell, it will contract and cause cell division. By expressing ''yneA'' and inhibiting ''ftsZ'' ring formation, the cells will grow filamentous. By inhibiting cell division, yneA allows the DNA damage genes to repair the DNA damage before continuing with the cell division cycle. It is hypothesized that yneA acts through an unknown transmembrane protein to inhibit ''ftsZ'' ring formation; we call this/these unknown components ???Blackbox proteins???. As the evidence shows expression of ''yneA'' leads to filamentation.
mutable notes: None
mutable provenance: Genomic ''Bacillus subtilis''
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Translational Unit
role: SO:0000804
sequence annotation: Double stop codon
sequence: https://synbiohub.org/public/igem/BBa_K302005_sequence/1

Double stop codon
type: SequenceAnnotation
persistent identity: annotation2080756
display id: annotation2080756
version: 1
top level: BBa_K302005
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302005/annotation2080756/range2080756/1

https://synbiohub.org/public/igem/BBa_K302005/annotation2080756/range2080756/1
type: Range
persistent identity: range2080756
display id: range2080756
version: 1
direction: direction/forward
top level: BBa_K302005
start: 349
end: 354
orientation: inline

BBa_K1197009
type: ComponentDefinition
persistent identity: BBa K1197009
display id: BBa_K1197009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Phyp + RBS (SpoVG) + RFP + DT
creator: Emre İlpars
created: 2013-09-21T11:00:00Z
modified: 2015-06-08T11:40:52Z
discontinued: false
dominant: false
group u list: _1511_
m user id: 0
m user id: 4206
owner id: 12422
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: .
mutable notes: .
mutable provenance: .
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K606040
component: BBa_K606013
sequence annotation: BBa_K606013
sequence annotation: BBa_K606040
sequence: https://synbiohub.org/public/igem/BBa_K1197009_sequence/1

BBa_K606040
type: Component
persistent identity: component2359802
display id: component2359802
version: 1
top level: BBa_K1197009
access: public
definition: https://synbiohub.org/public/igem/BBa_K606040/1

BBa_K606013
type: Component
persistent identity: component2359816
display id: component2359816
version: 1
top level: BBa_K1197009
access: public
definition: https://synbiohub.org/public/igem/BBa_K606013/1

BBa_K606013
type: SequenceAnnotation
persistent identity: annotation2359816
display id: annotation2359816
version: 1
top level: BBa_K1197009
location: https://synbiohub.org/public/igem/BBa_K1197009/annotation2359816/range2359816/1
component: BBa_K606013

https://synbiohub.org/public/igem/BBa_K1197009/annotation2359816/range2359816/1
type: Range
persistent identity: range2359816
display id: range2359816
version: 1
direction: direction/reverse
top level: BBa_K1197009
start: 101
end: 961
orientation: inline

BBa_K606040
type: SequenceAnnotation
persistent identity: annotation2359802
display id: annotation2359802
version: 1
top level: BBa_K1197009
location: https://synbiohub.org/public/igem/BBa_K1197009/annotation2359802/range2359802/1
component: BBa_K606040

https://synbiohub.org/public/igem/BBa_K1197009/annotation2359802/range2359802/1
type: Range
persistent identity: range2359802
display id: range2359802
version: 1
direction: direction/reverse
top level: BBa_K1197009
start: 1
end: 92
orientation: inline

CiproR
type: ComponentDefinition
persistent identity: BBa K1930004
display id: BBa_K1930004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Ciprofloxacin resistance cassette
creator: Mareike Schmidt
created: 2016-10-15T11:00:00Z
modified: 2016-10-16T04:58:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Planning
bookmark: true
mutable description: QnrS1 resistance cassette BioBrick BBa_K1930004.
mutable notes: To design a QnrS1 resistance cassette BioBrick BBa_K1930004 we designed a gBlock that contains the Bacillus subtilis promoter PAtpI, which is active from a very early stage of germination and includes a ribosome binding site. The gBlock also contains the original QnrS1 gene sequence from E. coli, the double terminator BBa_B0015 from iGEM as well as the prefix and suffix for BioBricks. In summary the ciprofloxacin cassette consists of the following parts PAtpI+RBS+QnrS1+2TER.
mutable provenance: Ordered as gBlock. IDT (Integrated DNA technologies).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: P(AtpI)
sequence annotation: Qnrs1
sequence annotation: 2TER
sequence annotation: BBa_B0015
sequence annotation: BBa_K1930005
sequence: https://synbiohub.org/public/igem/BBa_K1930004_sequence/1

P(AtpI)
type: SequenceAnnotation
persistent identity: annotation2513502
display id: annotation2513502
version: 1
top level: CiproR
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1930004/annotation2513502/range2513502/1

https://synbiohub.org/public/igem/BBa_K1930004/annotation2513502/range2513502/1
type: Range
persistent identity: range2513502
display id: range2513502
version: 1
direction: direction/forward
top level: CiproR
start: 1
end: 350
orientation: inline

Qnrs1
type: SequenceAnnotation
persistent identity: annotation2513504
display id: annotation2513504
version: 1
top level: CiproR
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930004/annotation2513504/range2513504/1

https://synbiohub.org/public/igem/BBa_K1930004/annotation2513504/range2513504/1
type: Range
persistent identity: range2513504
display id: range2513504
version: 1
direction: direction/forward
top level: CiproR
start: 351
end: 1007
orientation: inline

2TER
type: SequenceAnnotation
persistent identity: annotation2513505
display id: annotation2513505
version: 1
top level: CiproR
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1930004/annotation2513505/range2513505/1

https://synbiohub.org/public/igem/BBa_K1930004/annotation2513505/range2513505/1
type: Range
persistent identity: range2513505
display id: range2513505
version: 1
direction: direction/forward
top level: CiproR
start: 1008
end: 1136
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2513506
display id: annotation2513506
version: 1
top level: CiproR
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930004/annotation2513506/range2513506/1

https://synbiohub.org/public/igem/BBa_K1930004/annotation2513506/range2513506/1
type: Range
persistent identity: range2513506
display id: range2513506
version: 1
direction: direction/forward
top level: CiproR
start: 1008
end: 1136
orientation: inline

BBa_K1930005
type: SequenceAnnotation
persistent identity: annotation2513503
display id: annotation2513503
version: 1
top level: CiproR
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930004/annotation2513503/range2513503/1

https://synbiohub.org/public/igem/BBa_K1930004/annotation2513503/range2513503/1
type: Range
persistent identity: range2513503
display id: range2513503
version: 1
direction: direction/forward
top level: CiproR
start: 1
end: 350
orientation: inline

Subtilin P
type: ComponentDefinition
persistent identity: BBa K104001
display id: BBa_K104001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Sensor for small peptide Subtilin
creator: The Newcastle 2008 iGEM team
created: 2008-10-23T11:00:00Z
modified: 2015-06-09T09:00:20Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part encodes a two-component system that can be used to sense the level of a small lantibiotic peptide called subtilin. It belongs to a series of parts that can be used to sense quorum sensing peptides from Gram positive organisms. In the Newcastle 2008 iGEM entry it was used a 'proof of concept' brick to test whether a peptide produced by one organism could be sensed by a different organism. The part contains two orfs arranged in an operon, SpaK and SpaR, that are driven by their native RBSs and the promoter PspaRK. Downstream of the SpaRK operon is terminator followed by a RBS and a promoter PspaS. In response to subtilin, the sensor kinase SpaK will phosphorylate, and hence activate, the response regulator SpaR. The phosphorylated SpaR protein activates the PspaS promoter driving the expression of any downstream genes. In this brick there are no ORF's downstream of PspaS but the brick has been tested with gfp and mcherry by the Newcastle 2008 team.
mutable notes: A terminator was included after the spaRK to prevent read through. The native SpaRK promoter is controlled by the sigma factor sigma-H and induced at the end of exponential phase. The regulation by sigma-H was left unmodified.
mutable provenance: The two component system, its promoter and RBS's, and the pSpaS promoter sequence are all derived from the genome of Bacillus subtilis ATCC 6633.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Signalling
role: SO:0000804
sequence annotation: RBS_spaR
sequence annotation: Prom_spaS
sequence annotation: ter_rrn0
sequence annotation: Prom_spaRK
sequence annotation: spaK
sequence annotation: RBS_spaK
sequence annotation: spaR
sequence: https://synbiohub.org/public/igem/BBa_K104001_sequence/1

RBS_spaR
type: SequenceAnnotation
persistent identity: annotation1999035
display id: annotation1999035
version: 1
top level: Subtilin P
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999035/range1999035/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999035/range1999035/1
type: Range
persistent identity: range1999035
display id: range1999035
version: 1
direction: direction/forward
top level: Subtilin P
start: 124
end: 132
orientation: inline

Prom_spaS
type: SequenceAnnotation
persistent identity: annotation1999040
display id: annotation1999040
version: 1
top level: Subtilin P
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999040/range1999040/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999040/range1999040/1
type: Range
persistent identity: range1999040
display id: range1999040
version: 1
direction: direction/forward
top level: Subtilin P
start: 2043
end: 2120
orientation: inline

ter_rrn0
type: SequenceAnnotation
persistent identity: annotation1999039
display id: annotation1999039
version: 1
top level: Subtilin P
role: feature/stem loop
role: SO:0000313
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999039/range1999039/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999039/range1999039/1
type: Range
persistent identity: range1999039
display id: range1999039
version: 1
direction: direction/forward
top level: Subtilin P
start: 1939
end: 1957
orientation: inline

Prom_spaRK
type: SequenceAnnotation
persistent identity: annotation1986985
display id: annotation1986985
version: 1
top level: Subtilin P
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1986985/range1986985/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1986985/range1986985/1
type: Range
persistent identity: range1986985
display id: range1986985
version: 1
direction: direction/forward
top level: Subtilin P
start: 7
end: 123
orientation: inline

spaK
type: SequenceAnnotation
persistent identity: annotation1999038
display id: annotation1999038
version: 1
top level: Subtilin P
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999038/range1999038/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999038/range1999038/1
type: Range
persistent identity: range1999038
display id: range1999038
version: 1
direction: direction/forward
top level: Subtilin P
start: 772
end: 1953
orientation: inline

RBS_spaK
type: SequenceAnnotation
persistent identity: annotation1999037
display id: annotation1999037
version: 1
top level: Subtilin P
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999037/range1999037/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999037/range1999037/1
type: Range
persistent identity: range1999037
display id: range1999037
version: 1
direction: direction/forward
top level: Subtilin P
start: 772
end: 780
orientation: inline

spaR
type: SequenceAnnotation
persistent identity: annotation1999036
display id: annotation1999036
version: 1
top level: Subtilin P
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K104001/annotation1999036/range1999036/1

https://synbiohub.org/public/igem/BBa_K104001/annotation1999036/range1999036/1
type: Range
persistent identity: range1999036
display id: range1999036
version: 1
direction: direction/forward
top level: Subtilin P
start: 137
end: 799
orientation: inline

BBa_K1364011
type: ComponentDefinition
persistent identity: BBa K1364011
display id: BBa_K1364011
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg-spoVG + EcAMP-1 + Double terminator
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2016-01-28T12:11:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K1364010
component: BBa_B0015
sequence annotation: BBa_K1364010
sequence annotation: BBa_B0015
sequence: https://synbiohub.org/public/igem/BBa_K1364011_sequence/1

BBa_K1364010
type: Component
persistent identity: component2392910
display id: component2392910
version: 1
top level: BBa_K1364011
access: public
definition: BBa_K1364010

BBa_B0015
type: Component
persistent identity: component2392917
display id: component2392917
version: 1
top level: BBa_K1364011
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_K1364010
type: SequenceAnnotation
persistent identity: annotation2392910
display id: annotation2392910
version: 1
top level: BBa_K1364011
location: https://synbiohub.org/public/igem/BBa_K1364011/annotation2392910/range2392910/1
component: BBa_K1364010

https://synbiohub.org/public/igem/BBa_K1364011/annotation2392910/range2392910/1
type: Range
persistent identity: range2392910
display id: range2392910
version: 1
direction: direction/reverse
top level: BBa_K1364011
start: 1
end: 229
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2392917
display id: annotation2392917
version: 1
top level: BBa_K1364011
location: https://synbiohub.org/public/igem/BBa_K1364011/annotation2392917/range2392917/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1364011/annotation2392917/range2392917/1
type: Range
persistent identity: range2392917
display id: range2392917
version: 1
direction: direction/reverse
top level: BBa_K1364011
start: 238
end: 366
orientation: inline

BBa_K090505
type: ComponentDefinition
persistent identity: BBa K090505
display id: BBa_K090505
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: ''Bacillus subtilis'' consensus RBS
creator: Daniel Goodman
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:08:37Z
discontinued: false
dominant: false
experience: experience/None
group u list: _188_
m user id: 0
owner id: 3501
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is the consensus RBS for Bacillus subtilis.
mutable notes: The part must be 8 nucleotides away from the first methionine of the coding sequence, and so we added 'TGT' downstream of the actual binding sequence: AAAGGAGG. This, combined with the truncated non-CDS BioBrick prefix scar, gives exactly 8 'spacer bases' between the 3' end of the RBS and the start of the coding sequence.
mutable provenance: This part was synthesized directly.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: B. subtilis consensus RBS
sequence: https://synbiohub.org/public/igem/BBa_K090505_sequence/1

B. subtilis consensus RBS
type: SequenceAnnotation
persistent identity: annotation1992802
display id: annotation1992802
version: 1
top level: BBa_K090505
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K090505/annotation1992802/range1992802/1

https://synbiohub.org/public/igem/BBa_K090505/annotation1992802/range1992802/1
type: Range
persistent identity: range1992802
display id: range1992802
version: 1
direction: direction/forward
top level: BBa_K090505
start: 1
end: 8
orientation: inline

BBa_K1351025
type: ComponentDefinition
persistent identity: BBa K1351025
display id: BBa_K1351025
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PcomAB, a CSP inducible promoter derived from Streptococcus pneumoniae
creator: Judith Heckmann
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:13:27Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20370
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: CSP-depending promoter of Streptococcus pneumoniae. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCCGCGGCCGCTTCTAGATAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: none
mutable provenance: gDNA from Streptococcus pneumoniae R6
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: ComE binding site Left
sequence annotation: ComE binding site Right
sequence: https://synbiohub.org/public/igem/BBa_K1351025_sequence/1

ComE binding site Left
type: SequenceAnnotation
persistent identity: annotation2397923
display id: annotation2397923
version: 1
top level: BBa_K1351025
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351025/annotation2397923/range2397923/1

https://synbiohub.org/public/igem/BBa_K1351025/annotation2397923/range2397923/1
type: Range
persistent identity: range2397923
display id: range2397923
version: 1
direction: direction/forward
top level: BBa_K1351025
start: 62
end: 70
orientation: inline

ComE binding site Right
type: SequenceAnnotation
persistent identity: annotation2397924
display id: annotation2397924
version: 1
top level: BBa_K1351025
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351025/annotation2397924/range2397924/1

https://synbiohub.org/public/igem/BBa_K1351025/annotation2397924/range2397924/1
type: Range
persistent identity: range2397924
display id: range2397924
version: 1
direction: direction/forward
top level: BBa_K1351025
start: 83
end: 91
orientation: inline

BBa_K143080
type: ComponentDefinition
persistent identity: BBa K143080
display id: BBa_K143080
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P43-gsiB RFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: RFP gene under expresson of the P43 promoter and gsiB RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the P43 promoter and gsiB RBS (Combined part BBa_K143050 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, RFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter P43 and RBS gsiB were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the P43-gsiB part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143076
component: BBa_K143071
sequence annotation: BBa_K143071
sequence annotation: BBa_K143076
sequence: https://synbiohub.org/public/igem/BBa_K143080_sequence/1

BBa_K143076
type: Component
persistent identity: component2232934
display id: component2232934
version: 1
top level: BBa_K143080
access: public
definition: BBa_K143076

BBa_K143071
type: Component
persistent identity: component2232921
display id: component2232921
version: 1
top level: BBa_K143080
access: public
definition: BBa_K143071

BBa_K143071
type: SequenceAnnotation
persistent identity: annotation2232921
display id: annotation2232921
version: 1
top level: BBa_K143080
location: https://synbiohub.org/public/igem/BBa_K143080/annotation2232921/range2232921/1
component: BBa_K143071

https://synbiohub.org/public/igem/BBa_K143080/annotation2232921/range2232921/1
type: Range
persistent identity: range2232921
display id: range2232921
version: 1
direction: direction/reverse
top level: BBa_K143080
start: 1
end: 1491
orientation: inline

BBa_K143076
type: SequenceAnnotation
persistent identity: annotation2232934
display id: annotation2232934
version: 1
top level: BBa_K143080
location: https://synbiohub.org/public/igem/BBa_K143080/annotation2232934/range2232934/1
component: BBa_K143076

https://synbiohub.org/public/igem/BBa_K143080/annotation2232934/range2232934/1
type: Range
persistent identity: range2232934
display id: range2232934
version: 1
direction: direction/reverse
top level: BBa_K143080
start: 1498
end: 3350
orientation: inline

BBa_K143082
type: ComponentDefinition
persistent identity: BBa K143082
display id: BBa_K143082
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg-spoVG RFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: RFP gene under expresson of the Pveg promoter and spoVG RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the Pveg promoter and spoVG RBS (Combined part BBa_K143053 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, RFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter Pveg and RBS spoVG were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the Pveg-spoVG part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: true
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143074
component: BBa_K143076
sequence annotation: BBa_K143074
sequence annotation: BBa_K143076
sequence: https://synbiohub.org/public/igem/BBa_K143082_sequence/1

BBa_K143074
type: Component
persistent identity: component2232993
display id: component2232993
version: 1
top level: BBa_K143082
access: public
definition: BBa_K143074

BBa_K143076
type: Component
persistent identity: component2233006
display id: component2233006
version: 1
top level: BBa_K143082
access: public
definition: BBa_K143076

BBa_K143074
type: SequenceAnnotation
persistent identity: annotation2232993
display id: annotation2232993
version: 1
top level: BBa_K143082
location: https://synbiohub.org/public/igem/BBa_K143082/annotation2232993/range2232993/1
component: BBa_K143074

https://synbiohub.org/public/igem/BBa_K143082/annotation2232993/range2232993/1
type: Range
persistent identity: range2232993
display id: range2232993
version: 1
direction: direction/reverse
top level: BBa_K143082
start: 1
end: 1575
orientation: inline

BBa_K143076
type: SequenceAnnotation
persistent identity: annotation2233006
display id: annotation2233006
version: 1
top level: BBa_K143082
location: https://synbiohub.org/public/igem/BBa_K143082/annotation2233006/range2233006/1
component: BBa_K143076

https://synbiohub.org/public/igem/BBa_K143082/annotation2233006/range2233006/1
type: Range
persistent identity: range2233006
display id: range2233006
version: 1
direction: direction/reverse
top level: BBa_K143082
start: 1582
end: 3434
orientation: inline

P43-spoVG
type: ComponentDefinition
persistent identity: BBa K143051
display id: BBa_K143051
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter 43 and RBS spoVG for B. subtilis
creator: Chris Hirst
created: 2008-09-29T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Constitutive promoter 43( BBa_K143013 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. P43-spoVG can be used in the context of a Polymerase per second (PoPS) output generator. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of P43 and RBS-spoVG were obtained from papers1 2 and the sequence synthesised by GeneArt.
mutable provenance: P43-spoVG was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143013
component: BBa_K143021
sequence annotation: BBa_K143013
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K143051_sequence/1

BBa_K143013
type: Component
persistent identity: component1977514
display id: component1977514
version: 1
top level: P43-spoVG
access: public
definition: P43

BBa_K143021
type: Component
persistent identity: component1977516
display id: component1977516
version: 1
top level: P43-spoVG
access: public
definition: RBS-spoVG

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1977514
display id: annotation1977514
version: 1
top level: P43-spoVG
location: https://synbiohub.org/public/igem/BBa_K143051/annotation1977514/range1977514/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143051/annotation1977514/range1977514/1
type: Range
persistent identity: range1977514
display id: range1977514
version: 1
direction: direction/reverse
top level: P43-spoVG
start: 1
end: 56
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1977516
display id: annotation1977516
version: 1
top level: P43-spoVG
location: https://synbiohub.org/public/igem/BBa_K143051/annotation1977516/range1977516/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143051/annotation1977516/range1977516/1
type: Range
persistent identity: range1977516
display id: range1977516
version: 1
direction: direction/reverse
top level: P43-spoVG
start: 65
end: 76
orientation: inline

BBa_K1085001
type: ComponentDefinition
persistent identity: BBa K1085001
display id: BBa_K1085001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon SpiderSilkSubunitE1
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:07:59Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitE1) with Bacillus Subtilis ribosome binding site (RBS) infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. SubunitE1 codes for a spider silk protein that is optimized to prevent the forming of secundary RNA structures in close proximity to the RBS. This is given priority over reducing the number of restriction sites. However, the primary goal of the algorithm was still to optimize the codon selection based on their availbility scores.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spidersilk subunit E1
sequence annotation: RBS
sequence annotation: starting codon (ATG)
sequence: https://synbiohub.org/public/igem/BBa_K1085001_sequence/1

spidersilk subunit E1
type: SequenceAnnotation
persistent identity: annotation2338312
display id: annotation2338312
version: 1
top level: BBa_K1085001
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085001/annotation2338312/range2338312/1

https://synbiohub.org/public/igem/BBa_K1085001/annotation2338312/range2338312/1
type: Range
persistent identity: range2338312
display id: range2338312
version: 1
direction: direction/forward
top level: BBa_K1085001
start: 17
end: 226
orientation: inline

RBS
type: SequenceAnnotation
persistent identity: annotation2338309
display id: annotation2338309
version: 1
top level: BBa_K1085001
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1085001/annotation2338309/range2338309/1

https://synbiohub.org/public/igem/BBa_K1085001/annotation2338309/range2338309/1
type: Range
persistent identity: range2338309
display id: range2338309
version: 1
direction: direction/forward
top level: BBa_K1085001
start: 1
end: 6
orientation: inline

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2338314
display id: annotation2338314
version: 1
top level: BBa_K1085001
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085001/annotation2338314/range2338314/1

https://synbiohub.org/public/igem/BBa_K1085001/annotation2338314/range2338314/1
type: Range
persistent identity: range2338314
display id: range2338314
version: 1
direction: direction/forward
top level: BBa_K1085001
start: 14
end: 16
orientation: inline

Ph-s-gsiB
type: ComponentDefinition
persistent identity: BBa K143054
display id: BBa_K143054
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter hyper-spank and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-10-07T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Inducible promoter hyper-spank( BBa_K143015 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. Phyperspank-gsiB can be used to take an input of IPTG and give a '''Ribosomes per second''' (RiPS) output generator. IPTG does not directly induce the expression of the promoter hyper-spank, but requires the transcriptional regulator '''LacI''', ( BBa_K143035 ). This means that LacI must be constitutively expressed in ''B.subtilis'' in order to use the promoter hyper-spank as an inducible promoter. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter hyperspank was obtained from the ''B. subtilis'' integration vector pDR111 and RBS-gsiB were obtained from papers1 and the sequence synthesised by GeneArt
mutable provenance: Phyperspank-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143015
component: BBa_K143020
sequence annotation: BBa_K143020
sequence annotation: BBa_K143015
sequence: https://synbiohub.org/public/igem/BBa_K143054_sequence/1

BBa_K143015
type: Component
persistent identity: component1992686
display id: component1992686
version: 1
top level: Ph-s-gsiB
access: public
definition: Ph-s

BBa_K143020
type: Component
persistent identity: component1992688
display id: component1992688
version: 1
top level: Ph-s-gsiB
access: public
definition: RBS-GsiB

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1992688
display id: annotation1992688
version: 1
top level: Ph-s-gsiB
location: https://synbiohub.org/public/igem/BBa_K143054/annotation1992688/range1992688/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143054/annotation1992688/range1992688/1
type: Range
persistent identity: range1992688
display id: range1992688
version: 1
direction: direction/reverse
top level: Ph-s-gsiB
start: 110
end: 120
orientation: inline

BBa_K143015
type: SequenceAnnotation
persistent identity: annotation1992686
display id: annotation1992686
version: 1
top level: Ph-s-gsiB
location: https://synbiohub.org/public/igem/BBa_K143054/annotation1992686/range1992686/1
component: BBa_K143015

https://synbiohub.org/public/igem/BBa_K143054/annotation1992686/range1992686/1
type: Range
persistent identity: range1992686
display id: range1992686
version: 1
direction: direction/reverse
top level: Ph-s-gsiB
start: 1
end: 101
orientation: inline

BBa_K1452001
type: ComponentDefinition
persistent identity: BBa K1452001
display id: BBa_K1452001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pos/neg selection (Bacillus)
creator: Keoni Gandall
created: 2014-11-02T12:00:00Z
modified: 2015-06-01T02:28:44Z
discontinued: false
dominant: false
group u list: _1830_
m user id: 4206
owner id: 14964
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This is a positive/negative selection cassette for Bacillus. If flanked by Bacillus integration sites and integration sites for any chosen DNA, that DNA can be integrated into Bacillus and then the selection cassette can be integrated over by whatever DNA you chose.
mutable notes: ***the mazF toxin is unstable in plasmids without the mazE antitoxin***
mutable provenance: http://www.bgsc.org/viewdetail.php?bgscid=ECE194&Search=pDGieF http://www.ncbi.nlm.nih.gov/pubmed/16714443
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Project
component: BBa_K302033
sequence annotation: BBa_K302033
sequence: https://synbiohub.org/public/igem/BBa_K1452001_sequence/1

BBa_K302033
type: Component
persistent identity: component2430143
display id: component2430143
version: 1
top level: BBa_K1452001
access: public
definition: BBa_K302033

BBa_K302033
type: SequenceAnnotation
persistent identity: annotation2430143
display id: annotation2430143
version: 1
top level: BBa_K1452001
location: https://synbiohub.org/public/igem/BBa_K1452001/annotation2430143/range2430143/1
component: BBa_K302033

https://synbiohub.org/public/igem/BBa_K1452001/annotation2430143/range2430143/1
type: Range
persistent identity: range2430143
display id: range2430143
version: 1
direction: direction/reverse
top level: BBa_K1452001
start: 1
end: 339
orientation: inline

BBa_J33206
type: ComponentDefinition
persistent identity: BBa J33206
display id: BBa_J33206
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Bacillus subtilis ars promoter and arsR gene plus E. coli lacZ
creator: Chris French
created: 2006-10-25T11:00:00Z
modified: 2015-08-31T04:08:46Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _63_
m user id: 0
owner id: 837
owning group id: 63
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: This part includes the arsenate-responsive ars promoter from Bacillus subtilis (Sato, T., and Kobayashi, Y. 1998. J. Bacteriol. 180, 1655-1661), together with the arsR gene encoding the negatively autoregulated repressor ArsR, plus the Escherichia coli lacZ' gene encoding the N-terminal 137 amino acid residues of LacZ, sufficient to complement the chromosomal lacZ-delta-M15 mutation carried by many common lab strains of E. coli. This construct is designed to give LacZ' expression in the presence of arsenic as arsenate or arsenite anion. In previous experiments using other reporter genes such as xylE (available as biobrick BBa_J33204), we have found that this promoter gives a more rapid and stronger response than the E. coli chromosomal ars promoter (available as biobrick BBa_J33201, and fused to lacZ' as BBa_J33203), but with higher background activity in the absence of arsenate. Our experiments with this particular construct showed no obvious inducibility of a pH response due to a high background expression level in the absence of arsenate; however, ONPG assays have not yet been done. This construct does not include a terminator, so another reporter gene could be added at the 3' end for further experiments.
mutable notes: The B. subtilis ars promoter and arsR gene were amplified as a biobrick-like component, but unfortunately a base of the biobrick suffix was inadvertently omitted, so that this could not be submitted alone as a proper biobrick. The lacZ' component is similar to that submitted as BBa_J33202, but differs in including a larger amount of DNA, encoding 137 amino acid residues rather than 76. This was isolated as an unexpected minor product from the PCR reactions which gave BBa_J33202. It appears to complement the lacZ-delta-M15 mutation equally well. The two components were joined as biobricks to generate the construct given here.
mutable provenance: The B. subtilis ars promoter and arsR gene were amplified from B. subtilis 168 genomic DNA using primers based on the published genome sequence. The E. coli lacZ' was amplified from E. coli BL21 genomic DNA using primers based on published sequence data (Genbank accession J01636, gi:146575).
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/Reporter
role: SO:0000804
sequence annotation: -10
sequence annotation: -35
sequence annotation: rbs
sequence annotation: ArsR binding site
sequence annotation: lacZ'
sequence annotation: fusion site
sequence annotation: arsR
sequence: https://synbiohub.org/public/igem/BBa_J33206_sequence/1

-10
type: SequenceAnnotation
persistent identity: annotation1906003
display id: annotation1906003
version: 1
top level: BBa_J33206
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906003/range1906003/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906003/range1906003/1
type: Range
persistent identity: range1906003
display id: range1906003
version: 1
direction: direction/forward
top level: BBa_J33206
start: 142
end: 147
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation1906002
display id: annotation1906002
version: 1
top level: BBa_J33206
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906002/range1906002/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906002/range1906002/1
type: Range
persistent identity: range1906002
display id: range1906002
version: 1
direction: direction/forward
top level: BBa_J33206
start: 118
end: 123
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation1906004
display id: annotation1906004
version: 1
top level: BBa_J33206
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906004/range1906004/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906004/range1906004/1
type: Range
persistent identity: range1906004
display id: range1906004
version: 1
direction: direction/forward
top level: BBa_J33206
start: 172
end: 178
orientation: inline

ArsR binding site
type: SequenceAnnotation
persistent identity: annotation1905999
display id: annotation1905999
version: 1
top level: BBa_J33206
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1905999/range1905999/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1905999/range1905999/1
type: Range
persistent identity: range1905999
display id: range1905999
version: 1
direction: direction/forward
top level: BBa_J33206
start: 98
end: 115
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation1906007
display id: annotation1906007
version: 1
top level: BBa_J33206
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906007/range1906007/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906007/range1906007/1
type: Range
persistent identity: range1906007
display id: range1906007
version: 1
direction: direction/forward
top level: BBa_J33206
start: 510
end: 516
orientation: inline

lacZ'
type: SequenceAnnotation
persistent identity: annotation1906008
display id: annotation1906008
version: 1
top level: BBa_J33206
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906008/range1906008/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906008/range1906008/1
type: Range
persistent identity: range1906008
display id: range1906008
version: 1
direction: direction/forward
top level: BBa_J33206
start: 524
end: 934
orientation: inline

fusion site
type: SequenceAnnotation
persistent identity: annotation1906006
display id: annotation1906006
version: 1
top level: BBa_J33206
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906006/range1906006/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906006/range1906006/1
type: Range
persistent identity: range1906006
display id: range1906006
version: 1
direction: direction/forward
top level: BBa_J33206
start: 505
end: 510
orientation: inline

arsR
type: SequenceAnnotation
persistent identity: annotation1906005
display id: annotation1906005
version: 1
top level: BBa_J33206
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J33206/annotation1906005/range1906005/1

https://synbiohub.org/public/igem/BBa_J33206/annotation1906005/range1906005/1
type: Range
persistent identity: range1906005
display id: range1906005
version: 1
direction: direction/forward
top level: BBa_J33206
start: 187
end: 504
orientation: inline

BBa_K823009
type: ComponentDefinition
persistent identity: BBa K823009
display id: BBa_K823009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Anderson promoter J23107
creator: Korinna Kraft
created: 2012-09-07T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12081
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Anderson promoter J23107 (with one nucleotide different to the original Anderson promoter sequence) without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
mutable notes: no considerations
mutable provenance: Partsregistry
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -35 box
sequence annotation: J23107
sequence annotation: -10 box
sequence: https://synbiohub.org/public/igem/BBa_K823009_sequence/1

-35 box
type: SequenceAnnotation
persistent identity: annotation2182532
display id: annotation2182532
version: 1
top level: BBa_K823009
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K823009/annotation2182532/range2182532/1

https://synbiohub.org/public/igem/BBa_K823009/annotation2182532/range2182532/1
type: Range
persistent identity: range2182532
display id: range2182532
version: 1
direction: direction/forward
top level: BBa_K823009
start: 1
end: 6
orientation: inline

J23107
type: SequenceAnnotation
persistent identity: annotation2182531
display id: annotation2182531
version: 1
top level: BBa_K823009
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823009/annotation2182531/range2182531/1

https://synbiohub.org/public/igem/BBa_K823009/annotation2182531/range2182531/1
type: Range
persistent identity: range2182531
display id: range2182531
version: 1
direction: direction/forward
top level: BBa_K823009
start: 1
end: 35
orientation: inline

-10 box
type: SequenceAnnotation
persistent identity: annotation2182533
display id: annotation2182533
version: 1
top level: BBa_K823009
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K823009/annotation2182533/range2182533/1

https://synbiohub.org/public/igem/BBa_K823009/annotation2182533/range2182533/1
type: Range
persistent identity: range2182533
display id: range2182533
version: 1
direction: direction/forward
top level: BBa_K823009
start: 24
end: 29
orientation: inline

BBa_K143070
type: ComponentDefinition
persistent identity: BBa K143070
display id: BBa_K143070
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (Pveg-spoVG)
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to the PoPS generator Pveg-spoVG ( BBa_K143053 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The Pveg-spoVG promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of Pveg-spoVG was obtained from papers.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the Pveg-spoVG that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143021
component: BBa_K143012
component: BBa_K143001
sequence annotation: BBa_K143001
sequence annotation: BBa_K143021
sequence annotation: BBa_K143012
sequence: https://synbiohub.org/public/igem/BBa_K143070_sequence/1

BBa_K143021
type: Component
persistent identity: component1990786
display id: component1990786
version: 1
top level: BBa_K143070
access: public
definition: RBS-spoVG

BBa_K143012
type: Component
persistent identity: component1990784
display id: component1990784
version: 1
top level: BBa_K143070
access: public
definition: Pveg

BBa_K143001
type: Component
persistent identity: component1990781
display id: component1990781
version: 1
top level: BBa_K143070
access: public
definition: amyE 5 IS

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1990781
display id: annotation1990781
version: 1
top level: BBa_K143070
location: https://synbiohub.org/public/igem/BBa_K143070/annotation1990781/range1990781/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143070/annotation1990781/range1990781/1
type: Range
persistent identity: range1990781
display id: range1990781
version: 1
direction: direction/reverse
top level: BBa_K143070
start: 1
end: 522
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1990786
display id: annotation1990786
version: 1
top level: BBa_K143070
location: https://synbiohub.org/public/igem/BBa_K143070/annotation1990786/range1990786/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143070/annotation1990786/range1990786/1
type: Range
persistent identity: range1990786
display id: range1990786
version: 1
direction: direction/reverse
top level: BBa_K143070
start: 636
end: 647
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1990784
display id: annotation1990784
version: 1
top level: BBa_K143070
location: https://synbiohub.org/public/igem/BBa_K143070/annotation1990784/range1990784/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143070/annotation1990784/range1990784/1
type: Range
persistent identity: range1990784
display id: range1990784
version: 1
direction: direction/reverse
top level: BBa_K143070
start: 531
end: 627
orientation: inline

BBa_K143076
type: ComponentDefinition
persistent identity: BBa K143076
display id: BBa_K143076
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: B. subtilis AmyE locus RFP output promoter and RBS tester
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Long: AmyE 3' Integration sequence( BBa_K143002 ) coupled to RFP proein coding region and the registry double terminator (part BBa_J04650 . The amyE 3' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 5' amyE integration sequence( BBa_K143001 ) is cloned onto the 5' end of the construct. The RFP coding region gives a fluorescent output when a promoter and RBS are placed immediately upstream of the coding region while the terminator prevents readthrough.
mutable notes: The amyE 3' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. RFP and the double terminator were obtained from the registry.
mutable provenance: The amyE 3' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the RFP and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_J04650
component: BBa_K143002
sequence annotation: BBa_K143002
sequence annotation: BBa_J04650
sequence: https://synbiohub.org/public/igem/BBa_K143076_sequence/1

BBa_J04650
type: Component
persistent identity: component2220441
display id: component2220441
version: 1
top level: BBa_K143076
access: public
definition: https://synbiohub.org/public/igem/BBa_J04650/1

BBa_K143002
type: Component
persistent identity: component2220443
display id: component2220443
version: 1
top level: BBa_K143076
access: public
definition: amyE 3 IS

BBa_K143002
type: SequenceAnnotation
persistent identity: annotation2220443
display id: annotation2220443
version: 1
top level: BBa_K143076
location: https://synbiohub.org/public/igem/BBa_K143076/annotation2220443/range2220443/1
component: BBa_K143002

https://synbiohub.org/public/igem/BBa_K143076/annotation2220443/range2220443/1
type: Range
persistent identity: range2220443
display id: range2220443
version: 1
direction: direction/reverse
top level: BBa_K143076
start: 852
end: 1853
orientation: inline

BBa_J04650
type: SequenceAnnotation
persistent identity: annotation2220441
display id: annotation2220441
version: 1
top level: BBa_K143076
location: https://synbiohub.org/public/igem/BBa_K143076/annotation2220441/range2220441/1
component: BBa_J04650

https://synbiohub.org/public/igem/BBa_K143076/annotation2220441/range2220441/1
type: Range
persistent identity: range2220441
display id: range2220441
version: 1
direction: direction/reverse
top level: BBa_K143076
start: 1
end: 843
orientation: inline

BBa_K1085007
type: ComponentDefinition
persistent identity: BBa K1085007
display id: BBa_K1085007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SpiderSilkSubunitN2 Strep-tag
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:06:40Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitN2) and a Strep-tag behind it. SubunitN2 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to minimize the number of restriction sites, and the tetrary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS. The Strep-tag, fused at the C terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spidersilk subunit N2
sequence annotation: strep
sequence: https://synbiohub.org/public/igem/BBa_K1085007_sequence/1

spidersilk subunit N2
type: SequenceAnnotation
persistent identity: annotation2339056
display id: annotation2339056
version: 1
top level: BBa_K1085007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085007/annotation2339056/range2339056/1

https://synbiohub.org/public/igem/BBa_K1085007/annotation2339056/range2339056/1
type: Range
persistent identity: range2339056
display id: range2339056
version: 1
direction: direction/forward
top level: BBa_K1085007
start: 1
end: 129
orientation: inline

strep
type: SequenceAnnotation
persistent identity: annotation2339057
display id: annotation2339057
version: 1
top level: BBa_K1085007
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085007/annotation2339057/range2339057/1

https://synbiohub.org/public/igem/BBa_K1085007/annotation2339057/range2339057/1
type: Range
persistent identity: range2339057
display id: range2339057
version: 1
direction: direction/forward
top level: BBa_K1085007
start: 148
end: 171
orientation: inline

XylR-T
type: ComponentDefinition
persistent identity: BBa K143063
display id: BBa_K143063
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Xylose operon repressor protein - Terminator
creator: Chris Hirst
created: 2008-10-08T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Xylose operon repressor protein(XylR)( BBa_K143036 ) coupled to the double terminator ( BBa_B0015 . XylR can be used in conjunction with the xylose operon promoter ( BBa_K143014 ), where the XylR will act as a receiver for a xylose input to result in a '''Polymerases per second''' (PoPS) output. The double terminator is the most commonly used terminator and is a combination of parts BBa_B0010 and BBa_B0012 . The double terminator allows the XylR to be easily incorporated into a closed transcriptional unit.
mutable notes: XylR was identified from the ''B. subtilis'' chromosome. The double terminator is the most commonly used registry terminator.
mutable provenance: XylR was produced by PCR cloning using Pfu form the ''B. subtilis'' chromosome and cloned into a BioBrick with the registry double terminator
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
component: BBa_K143036
component: BBa_B0010
component: BBa_B0012
sequence annotation: BBa_B0010
sequence annotation: BBa_K143036
sequence annotation: BBa_B0012
sequence: https://synbiohub.org/public/igem/BBa_K143063_sequence/1

BBa_K143036
type: Component
persistent identity: component1980011
display id: component1980011
version: 1
top level: XylR-T
access: public
definition: XylR

BBa_B0010
type: Component
persistent identity: component1980012
display id: component1980012
version: 1
top level: XylR-T
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_B0012
type: Component
persistent identity: component1980014
display id: component1980014
version: 1
top level: XylR-T
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1980012
display id: annotation1980012
version: 1
top level: XylR-T
location: https://synbiohub.org/public/igem/BBa_K143063/annotation1980012/range1980012/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143063/annotation1980012/range1980012/1
type: Range
persistent identity: range1980012
display id: range1980012
version: 1
direction: direction/forward
top level: XylR-T
start: 1065
end: 1144
orientation: inline

BBa_K143036
type: SequenceAnnotation
persistent identity: annotation1980011
display id: annotation1980011
version: 1
top level: XylR-T
location: https://synbiohub.org/public/igem/BBa_K143063/annotation1980011/range1980011/1
component: BBa_K143036

https://synbiohub.org/public/igem/BBa_K143063/annotation1980011/range1980011/1
type: Range
persistent identity: range1980011
display id: range1980011
version: 1
direction: direction/reverse
top level: XylR-T
start: 1
end: 1056
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1980014
display id: annotation1980014
version: 1
top level: XylR-T
location: https://synbiohub.org/public/igem/BBa_K143063/annotation1980014/range1980014/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143063/annotation1980014/range1980014/1
type: Range
persistent identity: range1980014
display id: range1980014
version: 1
direction: direction/forward
top level: XylR-T
start: 1153
end: 1193
orientation: inline

R37
type: ComponentDefinition
persistent identity: BBa K780002
display id: BBa_K780002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Strong RBS for Bacillus Subtilis
creator: Krzysztof Szczepaniak
created: 2012-09-25T11:00:00Z
modified: 2015-05-08T01:13:18Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1034_
m user id: 0
owner id: 10113
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Strong RBS for Bacillus Subtilis
mutable notes: -
mutable provenance: 'host-takover module' from B.subtilis Bacteriophage SPO1
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K780002_sequence/1

BBa_K1351008
type: ComponentDefinition
persistent identity: BBa K1351008
display id: BBa_K1351008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Signal peptide of B. subtilis endonuclease YhcR
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:55:11Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Signal peptide (amino acids 1 to 46) of ''Bacillus subtilis'' endonuclease YhcR (UniProt [http://www.uniprot.org/uniprot/P54602 P54602]. YhcR is secreted and covalently anchored to the petidoglycan wall by the sortase YhcS. Despite its signal protein of RR-type, which is typical for proteins exported via the Tat pathway, export of YhcR is not Tat-dependent and seems to function via the Sec pathway (Tjalsma ''et. al.'', 2004). A YhcR-based surface display system has been shown to covalently anchor heterologous proteins to the ''B. subtilis'' cell wall (Liew ''et. al.'', 2012). It was used in the [http://2014.igem.org/Team:LMU-Munich/Project/Bakillus BaKillus project] to display pathogen-specific peptides and mediate adhesion of ''B. subtlis'' to pathogens. It consists of four components: the sortase substrate with a signal peptide (this part), a linker ([http://parts.igem.org/Part:BBa_K1351009 BBa_K1351009]) and a cell wall-anchoring domain ([http://parts.igem.org/Part:BBa_K1351010 BBa_K1351010]) as well as the sortase YhcS itself ([http://parts.igem.org/Part:BBa_K1351011 BBa_K1351011]), whose overexpression increases the efficiency of the surface display.
mutable notes: The native signal peptide of YhcR was used instead of known Sec-dependent signal peptides as Liew ''et. al.'' did 2012.
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. SP_YhcR_ ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC ATGCTGTCTGTCGAAATGATAAGC SP_YhcR_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT AGCTTCGAACGTGTACATTACATTTAAG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351008_sequence/1

BBa_K780000
type: ComponentDefinition
persistent identity: BBa K780000
display id: BBa_K780000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Terminator for Bacillus subtilis
creator: Nikodem Latocha
created: 2012-09-25T11:00:00Z
modified: 2015-05-08T01:13:18Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1034_
m user id: 0
owner id: 10113
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Our terminator is based on strong, Rho-independent terminator of gyrase gene, which is type II topoisomerase (EC 5.99.1.3). DNA gyrase uses the energy of ATP hydrolysis to introduce negative supercoils or relaxes positive supercoils. Negative DNA supercoiling is essential in vivo to compact the genome, relieve torsional strain during replication, and promote local melting for vital processes such as transcript initation by RNA polymerase. Gyrase gene is an housekeeping gene and because of that it must have efficient terminator.
mutable notes: -
mutable provenance: Terminator of gyrase (EC 5.99.1.3) gene.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000141
role: partType/Terminator
sequence: https://synbiohub.org/public/igem/BBa_K780000_sequence/1

BBa_K143067
type: ComponentDefinition
persistent identity: BBa K143067
display id: BBa_K143067
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (P43-gsiB)
creator: Chris Hirst
created: 2008-10-25T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to the PoPS generator P43-gsiB ( BBa_K143050 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The P43-gsiB promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of P43-gsiB was obtained from papers.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the P43-gsiB that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143001
component: BBa_K143013
component: BBa_K143020
sequence annotation: BBa_K143013
sequence annotation: BBa_K143020
sequence annotation: BBa_K143001
sequence: https://synbiohub.org/public/igem/BBa_K143067_sequence/1

BBa_K143001
type: Component
persistent identity: component1990701
display id: component1990701
version: 1
top level: BBa_K143067
access: public
definition: amyE 5 IS

BBa_K143013
type: Component
persistent identity: component1990706
display id: component1990706
version: 1
top level: BBa_K143067
access: public
definition: P43

BBa_K143020
type: Component
persistent identity: component1990708
display id: component1990708
version: 1
top level: BBa_K143067
access: public
definition: RBS-GsiB

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1990706
display id: annotation1990706
version: 1
top level: BBa_K143067
location: https://synbiohub.org/public/igem/BBa_K143067/annotation1990706/range1990706/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143067/annotation1990706/range1990706/1
type: Range
persistent identity: range1990706
display id: range1990706
version: 1
direction: direction/reverse
top level: BBa_K143067
start: 531
end: 586
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1990708
display id: annotation1990708
version: 1
top level: BBa_K143067
location: https://synbiohub.org/public/igem/BBa_K143067/annotation1990708/range1990708/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143067/annotation1990708/range1990708/1
type: Range
persistent identity: range1990708
display id: range1990708
version: 1
direction: direction/reverse
top level: BBa_K143067
start: 595
end: 605
orientation: inline

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1990701
display id: annotation1990701
version: 1
top level: BBa_K143067
location: https://synbiohub.org/public/igem/BBa_K143067/annotation1990701/range1990701/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143067/annotation1990701/range1990701/1
type: Range
persistent identity: range1990701
display id: range1990701
version: 1
direction: direction/reverse
top level: BBa_K143067
start: 1
end: 522
orientation: inline

amyE 5 IS
type: ComponentDefinition
persistent identity: BBa K143001
display id: BBa_K143001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 5??? Integration Sequence for the amyE locus of B. subtilis
creator: Chris Hirst
created: 2008-08-26T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: The 5' integration sequence can be added to the front of a Biobrick construct and the 3' integration sequence specific for this locus (Part BBa_K143002) to the rear of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The AmyE locus was the first locus used for integration into ''B.subtilis'' by Shimotsu and Henner#1 and is still commonly used in vectors such as pDR111#2, pDL#3 and their derivatives. Integration at the AmyE locus removes the ability of ''B.subtilis'' to break down starch, which can be assayed with iodine as described by Cutting and Vander-horn#4. The 5' and 3' integration sequences for the AmyE locus were used to integrate the Imperial 2008 iGEM project primary construct into the ''B.sutbilis'' chromosome. #1 pmid=3019840 #2 pmid=14597697 #3 ''Bacillus'' Genetic Stock Center [www.bgsc.org] #4 Cutting, S M.; Vander-Horn, P B. Genetic analysis. In: Harwood C R, Cutting S M. , editors. Molecular biological methods for Bacillus. Chichester, England: John Wiley & Sons, Ltd.; 1990. pp. 27???74.
mutable notes: The AmyE integration sequence was taken from the vector after comparison by BLAST to the ''B.subtilis'' chromosome to identify the homologous sequences. The sequence present in both the host chromosome and the plasmid at the 5' end of the gene is the 5' sequence required for integration.
mutable provenance: The 5??? integration sequence was taken from the shuttle vector pDR111 which has been used in many studies on ''B.subtilis'', in particular in the studies of transcriptional control#1 #2 #3 #1 pmid=14597697 #2 pmid=15937167 #3 pmid=12169614
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: 5' AmyE homologous sequence
sequence: https://synbiohub.org/public/igem/BBa_K143001_sequence/1

5' AmyE homologous sequence
type: SequenceAnnotation
persistent identity: annotation1974145
display id: annotation1974145
version: 1
top level: amyE 5 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143001/annotation1974145/range1974145/1

https://synbiohub.org/public/igem/BBa_K143001/annotation1974145/range1974145/1
type: Range
persistent identity: range1974145
display id: range1974145
version: 1
direction: direction/forward
top level: amyE 5 IS
start: 1
end: 522
orientation: inline

BBa_K090503
type: ComponentDefinition
persistent identity: BBa K090503
display id: BBa_K090503
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Gram-Positive General Constitutive Promoter
creator: Daniel Goodman
created: 2008-10-27T12:00:00Z
modified: 2015-06-09T09:03:21Z
discontinued: false
dominant: false
group u list: _188_
m user id: 4206
owner id: 3501
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is a constitutive (always-on) promoter for use with gram-positive organisms. It requires a downstream gram-positive ribosomal binding site and coding sequence to function. We only have experience using this part in B. subtilis, but it should function in most gram-positive organisms. It has not been tested and will most likely not work in E. coli.
mutable notes: We found the functional annotation in the associated paper: Kaltwasser M., T. Wiegert, and W. Schumann. 2002. Construction and Application of Epitope- and Green Fluorescent Protein-Tagging Integration Vectors for Bacillus subtilis. Appl. Environ. Microbiol 68:2624-2628 The primers we used to extract it (sans biobrick ends) are as follows: Forward: AAACGAGGTCATCATTTCCTT Reverse: CAAATGTAGTCTTTGAAAGTATTACA
mutable provenance: We PCRed this part out of the pMUTIN-YFP gram positive vector, acquired from the Bacillus Genetic Stock Center (bgsc.org), catalog number ECE151.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -10
sequence annotation: -35
sequence: https://synbiohub.org/public/igem/BBa_K090503_sequence/1

-10
type: SequenceAnnotation
persistent identity: annotation1991935
display id: annotation1991935
version: 1
top level: BBa_K090503
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K090503/annotation1991935/range1991935/1

https://synbiohub.org/public/igem/BBa_K090503/annotation1991935/range1991935/1
type: Range
persistent identity: range1991935
display id: range1991935
version: 1
direction: direction/forward
top level: BBa_K090503
start: 66
end: 71
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation1991934
display id: annotation1991934
version: 1
top level: BBa_K090503
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K090503/annotation1991934/range1991934/1

https://synbiohub.org/public/igem/BBa_K090503/annotation1991934/range1991934/1
type: Range
persistent identity: range1991934
display id: range1991934
version: 1
direction: direction/forward
top level: BBa_K090503
start: 43
end: 48
orientation: inline

BBa_K1351021
type: ComponentDefinition
persistent identity: BBa K1351021
display id: BBa_K1351021
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Monomeric Red Fluorescent Protein from Discosoma striata
creator: Anna Sommer
created: 2014-09-29T11:00:00Z
modified: 2016-01-26T01:58:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20043
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: Mutant of the Biobrick BBa_E1010, in order to make it compatible with the Freiburg-Standard, two AgeI-Restriction sites were deleted monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm
mutable notes: The Biobrick has the Following Prefix and Suffix: Gatcgaattccgcggccgcttctagataaggaggagccggc Gatcctgcagcggccgctactagtattaaccggt
mutable provenance: Discosoma striata (coral)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351021_sequence/1

BBa_K302013
type: ComponentDefinition
persistent identity: BBa K302013
display id: BBa_K302013
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: IPTG-inducible L-arginine
creator: Steven Woodhouse, Alan Koh
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: SR1 ..
mutable notes: No RBS needed.
mutable provenance: Synthesised.. reference paper.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K302002
component: BBa_B0014
component: BBa_K174004
sequence annotation: BBa_K302002
sequence annotation: BBa_K174004
sequence annotation: BBa_B0014
sequence: https://synbiohub.org/public/igem/BBa_K302013_sequence/1

BBa_K302002
type: Component
persistent identity: component2220654
display id: component2220654
version: 1
top level: BBa_K302013
access: public
definition: BBa_K302002

BBa_B0014
type: Component
persistent identity: component2220661
display id: component2220661
version: 1
top level: BBa_K302013
access: public
definition: https://synbiohub.org/public/igem/BBa_B0014/1

BBa_K174004
type: Component
persistent identity: component2220646
display id: component2220646
version: 1
top level: BBa_K302013
access: public
definition: BBa_K174004

BBa_K302002
type: SequenceAnnotation
persistent identity: annotation2220654
display id: annotation2220654
version: 1
top level: BBa_K302013
location: https://synbiohub.org/public/igem/BBa_K302013/annotation2220654/range2220654/1
component: BBa_K302002

https://synbiohub.org/public/igem/BBa_K302013/annotation2220654/range2220654/1
type: Range
persistent identity: range2220654
display id: range2220654
version: 1
direction: direction/reverse
top level: BBa_K302013
start: 107
end: 312
orientation: inline

BBa_K174004
type: SequenceAnnotation
persistent identity: annotation2220646
display id: annotation2220646
version: 1
top level: BBa_K302013
location: https://synbiohub.org/public/igem/BBa_K302013/annotation2220646/range2220646/1
component: BBa_K174004

https://synbiohub.org/public/igem/BBa_K302013/annotation2220646/range2220646/1
type: Range
persistent identity: range2220646
display id: range2220646
version: 1
direction: direction/reverse
top level: BBa_K302013
start: 1
end: 106
orientation: inline

BBa_B0014
type: SequenceAnnotation
persistent identity: annotation2220661
display id: annotation2220661
version: 1
top level: BBa_K302013
location: https://synbiohub.org/public/igem/BBa_K302013/annotation2220661/range2220661/1
component: BBa_B0014

https://synbiohub.org/public/igem/BBa_K302013/annotation2220661/range2220661/1
type: Range
persistent identity: range2220661
display id: range2220661
version: 1
direction: direction/reverse
top level: BBa_K302013
start: 313
end: 407
orientation: inline

YtvA-T
type: ComponentDefinition
persistent identity: BBa K143066
display id: BBa_K143066
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: YtvA light receptor Protein - Terminator
creator: Chris Hirst
created: 2008-10-25T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: YtvA light receptor protein (YtvA)( BBa_K143037 ) coupled to the double terminator ( BBa_B0015 . YtvA can be used in conjunction with a sigma factor B specific promoter ( BBa_K143010 or BBa_K143011 ), where the YtvA will act as a receiver for a blue light input to result in a '''Polymerases per second''' (PoPS) output. The double terminator is the most commonly used terminator and is a combination of parts BBa_B0010 and BBa_B0012 . The double terminator allows the YtvA to be easily incorporated into a closed transcriptional unit.
mutable notes: YtvA was identified from the ''B. subtilis'' chromosome. The double terminator is the most commonly used registry terminator.
mutable provenance: YtvA was synthesised by GeneArt and cloned into a BioBrick with the registry double terminator.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K143037
component: BBa_B0010
component: BBa_B0012
sequence annotation: BBa_B0012
sequence annotation: BBa_B0010
sequence annotation: BBa_K143037
sequence: https://synbiohub.org/public/igem/BBa_K143066_sequence/1

BBa_K143037
type: Component
persistent identity: component1988419
display id: component1988419
version: 1
top level: YtvA-T
access: public
definition: YtvA

BBa_B0010
type: Component
persistent identity: component1988420
display id: component1988420
version: 1
top level: YtvA-T
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_B0012
type: Component
persistent identity: component1988422
display id: component1988422
version: 1
top level: YtvA-T
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1988422
display id: annotation1988422
version: 1
top level: YtvA-T
location: https://synbiohub.org/public/igem/BBa_K143066/annotation1988422/range1988422/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143066/annotation1988422/range1988422/1
type: Range
persistent identity: range1988422
display id: range1988422
version: 1
direction: direction/forward
top level: YtvA-T
start: 886
end: 926
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1988420
display id: annotation1988420
version: 1
top level: YtvA-T
location: https://synbiohub.org/public/igem/BBa_K143066/annotation1988420/range1988420/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143066/annotation1988420/range1988420/1
type: Range
persistent identity: range1988420
display id: range1988420
version: 1
direction: direction/forward
top level: YtvA-T
start: 798
end: 877
orientation: inline

BBa_K143037
type: SequenceAnnotation
persistent identity: annotation1988419
display id: annotation1988419
version: 1
top level: YtvA-T
location: https://synbiohub.org/public/igem/BBa_K143066/annotation1988419/range1988419/1
component: BBa_K143037

https://synbiohub.org/public/igem/BBa_K143066/annotation1988419/range1988419/1
type: Range
persistent identity: range1988419
display id: range1988419
version: 1
direction: direction/reverse
top level: YtvA-T
start: 1
end: 789
orientation: inline

BBa_K1701000
type: ComponentDefinition
persistent identity: BBa K1701000
display id: BBa_K1701000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GolB
creator: Wei Wei
created: 2015-09-07T11:00:00Z
modified: 2016-01-11T03:16:13Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 0
m user id: 4206
owner id: 21319
owning group id: 9
sample status: In stock
status: status/Available
status: status/Planning
bookmark: false
mutable description: Gold-specific binding protein (GolB) is a gold-binding chaperon discovered in S. Typhimurium which has been verified that the display of GolB on E.coli cell surface permitted selective enrichment of gold ions from media containing various metal ions.
mutable notes: None
mutable provenance: http://www.ncbi.nlm.nih.gov/protein/NP_459350.1
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1701000_sequence/1

BBa_K1930003
type: ComponentDefinition
persistent identity: BBa K1930003
display id: BBa_K1930003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Encrypted message sequence in integration plasmid (BBa_K823023)
creator: Barbora Waclawikova
created: 2016-10-15T11:00:00Z
modified: 2016-10-17T09:01:43Z
discontinued: true
dominant: false
experience: experience/Works
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Deleted
bookmark: false
mutable description: The iGEM team Groningen 2016 worked on bioencryption in order to safely store data in DNA. In our project we were mainly working with two sequences of DNA which were the encrypted message sequence and the encryption key sequence. The message sequence was created by our software. It is therefore artificial DNA. We ordered the encrypted message sequence as gBlock from IDT (Integrated DNA technologies). This part was created in the interest of having a genomic integration plasmid with our message sequence. We used an available BioBrick BBa_K823023 from igem Munich 2012. It is an integration plasmid for Bacillus subtilis, which can be used for cloning in E. coli as well. An RFP is inserted in BBa_K823023 for more efficient screening after transformation.
mutable notes: The iGEM team Groningen 2016 worked on bioencryption in order to safely store data in DNA. In our project we were mainly working with two sequences of DNA which were the encrypted message sequence and the encryption key sequence. The message sequence was created by our software. It is therefore artificial DNA. We ordered the encrypted message sequence as gBlock from IDT (Integrated DNA technologies). This part was created in the interest of having a genomic integration plasmid with our message sequence. We used an available BioBrick BBa_K823023 from igem Munich 2012. It is an integration plasmid for Bacillus subtilis, which can be used for cloning in E. coli as well. An RFP is inserted in BBa_K823023 for more efficient screening after transformation. For more information see plasmid construction under our lab journal: http://2016.igem.org/Team:Groningen/Experiments
mutable provenance: Message sequence: Created by our CryptoGErM software. http://2016.igem.org/Team:Groningen/Encoding BBa_K823023: Created by iGEM Munich 2012. http://parts.igem.org/Part:BBa_K823023
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
sequence annotation: amyE
sequence annotation: bla
sequence annotation: cat
sequence annotation: BBa_K1930001
sequence annotation: BBa_K823023
sequence annotation: message sequence
sequence: https://synbiohub.org/public/igem/BBa_K1930003_sequence/1

amyE
type: SequenceAnnotation
persistent identity: annotation2513447
display id: annotation2513447
version: 1
top level: BBa_K1930003
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513447/range2513447/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513447/range2513447/1
type: Range
persistent identity: range2513447
display id: range2513447
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 1914
end: 2942
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2513448
display id: annotation2513448
version: 1
top level: BBa_K1930003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513448/range2513448/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513448/range2513448/1
type: Range
persistent identity: range2513448
display id: range2513448
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 4896
end: 5756
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2513446
display id: annotation2513446
version: 1
top level: BBa_K1930003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513446/range2513446/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513446/range2513446/1
type: Range
persistent identity: range2513446
display id: range2513446
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 893
end: 1543
orientation: inline

BBa_K1930001
type: SequenceAnnotation
persistent identity: annotation2514197
display id: annotation2514197
version: 1
top level: BBa_K1930003
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2514197/range2514197/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2514197/range2514197/1
type: Range
persistent identity: range2514197
display id: range2514197
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 1
end: 556
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2513449
display id: annotation2513449
version: 1
top level: BBa_K1930003
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513449/range2513449/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513449/range2513449/1
type: Range
persistent identity: range2513449
display id: range2513449
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 6081
end: 6601
orientation: inline

BBa_K823023
type: SequenceAnnotation
persistent identity: annotation2513444
display id: annotation2513444
version: 1
top level: BBa_K1930003
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513444/range2513444/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513444/range2513444/1
type: Range
persistent identity: range2513444
display id: range2513444
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 557
end: 6618
orientation: inline

message sequence
type: SequenceAnnotation
persistent identity: annotation2513445
display id: annotation2513445
version: 1
top level: BBa_K1930003
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1930003/annotation2513445/range2513445/1

https://synbiohub.org/public/igem/BBa_K1930003/annotation2513445/range2513445/1
type: Range
persistent identity: range2513445
display id: range2513445
version: 1
direction: direction/forward
top level: BBa_K1930003
start: 1
end: 556
orientation: inline

BBa_K1364008
type: ComponentDefinition
persistent identity: BBa K1364008
display id: BBa_K1364008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg - strong RBS - Antifungal GAFP-1 - Double terminator
creator: Laureen Mirassou
created: 2014-09-30T11:00:00Z
modified: 2015-06-08T09:17:49Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21466
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: The Gastrodia anti-fungal protein (GAFP-1) is a mannose-binding lectin which is able to inhibit the growth of multiples species of plant pathogenic fungi.
mutable notes: This part is composed of the strong, constitutive promoter of Bacillus subtilis Pveg (K823003), strong RBS (K780002), the open reading frame of the Gastrodia anti-fungal protein 1 (GAFP-1) and a double terminator B0015. optimized for its expression and its secretion in Bacillus subtilis. The codon optimization was made thanks to the DNA 2.0 software program.
mutable provenance: This part results from the association of BBa_K143012, BBa_K1364002 and BBa_B0015.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K1364002
component: BBa_B0015
component: BBa_K143012
sequence annotation: BBa_K1364002
sequence annotation: BBa_K143012
sequence annotation: BBa_B0015
sequence: https://synbiohub.org/public/igem/BBa_K1364008_sequence/1

BBa_K1364002
type: Component
persistent identity: component2391466
display id: component2391466
version: 1
top level: BBa_K1364008
access: public
definition: GAFP-1

BBa_B0015
type: Component
persistent identity: component2391473
display id: component2391473
version: 1
top level: BBa_K1364008
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_K143012
type: Component
persistent identity: component2391461
display id: component2391461
version: 1
top level: BBa_K1364008
access: public
definition: Pveg

BBa_K1364002
type: SequenceAnnotation
persistent identity: annotation2391466
display id: annotation2391466
version: 1
top level: BBa_K1364008
location: https://synbiohub.org/public/igem/BBa_K1364008/annotation2391466/range2391466/1
component: BBa_K1364002

https://synbiohub.org/public/igem/BBa_K1364008/annotation2391466/range2391466/1
type: Range
persistent identity: range2391466
display id: range2391466
version: 1
direction: direction/reverse
top level: BBa_K1364008
start: 106
end: 292
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2391461
display id: annotation2391461
version: 1
top level: BBa_K1364008
location: https://synbiohub.org/public/igem/BBa_K1364008/annotation2391461/range2391461/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K1364008/annotation2391461/range2391461/1
type: Range
persistent identity: range2391461
display id: range2391461
version: 1
direction: direction/reverse
top level: BBa_K1364008
start: 1
end: 97
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2391473
display id: annotation2391473
version: 1
top level: BBa_K1364008
location: https://synbiohub.org/public/igem/BBa_K1364008/annotation2391473/range2391473/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1364008/annotation2391473/range2391473/1
type: Range
persistent identity: range2391473
display id: range2391473
version: 1
direction: direction/reverse
top level: BBa_K1364008
start: 301
end: 429
orientation: inline

BBa_K302007
type: ComponentDefinition
persistent identity: BBa K302007
display id: BBa_K302007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaF
creator: Rachel May Boyd, Steven Woodhouse, Alan
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6345
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: One of three proteins from ''B. Subtilis'' which form a membrane transporter that removes subtilin from the membrane, preventing it from forming pores and killing the cells.
mutable notes: Overlaps with ''spaI'' to the 5' and ''spaE'' to the 3'
mutable provenance: Genebank
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spaE
sequence annotation: spaI
sequence annotation: spaF
sequence: https://synbiohub.org/public/igem/BBa_K302007_sequence/1

spaE
type: SequenceAnnotation
persistent identity: annotation2077614
display id: annotation2077614
version: 1
top level: BBa_K302007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302007/annotation2077614/range2077614/1

https://synbiohub.org/public/igem/BBa_K302007/annotation2077614/range2077614/1
type: Range
persistent identity: range2077614
display id: range2077614
version: 1
direction: direction/forward
top level: BBa_K302007
start: 741
end: 744
orientation: inline

spaI
type: SequenceAnnotation
persistent identity: annotation2077610
display id: annotation2077610
version: 1
top level: BBa_K302007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302007/annotation2077610/range2077610/1

https://synbiohub.org/public/igem/BBa_K302007/annotation2077610/range2077610/1
type: Range
persistent identity: range2077610
display id: range2077610
version: 1
direction: direction/forward
top level: BBa_K302007
start: 1
end: 14
orientation: inline

spaF
type: SequenceAnnotation
persistent identity: annotation2077611
display id: annotation2077611
version: 1
top level: BBa_K302007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302007/annotation2077611/range2077611/1

https://synbiohub.org/public/igem/BBa_K302007/annotation2077611/range2077611/1
type: Range
persistent identity: range2077611
display id: range2077611
version: 1
direction: direction/forward
top level: BBa_K302007
start: 1
end: 744
orientation: inline

BBa_K143074
type: ComponentDefinition
persistent identity: BBa K143074
display id: BBa_K143074
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (Pveg-spoVG) (with CmR)
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to a chloramphenicol resistance generator in closed transcriptional unit (Parts BBa_K143053 and BBa_K143064 ) and the PoPS generator Pveg-spoVG ( BBa_K143053 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The chloramphenicol adenyltransferase give resistance to chloramphenicol while the terminator prevents readthrough. The Pveg-spoVG promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of Pveg-spoVG was obtained from papers. Chloramphenicol adenyltransferase and the double terminator were obtained from the registry.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the Pveg-spoVG that was synthesised by GeneArt and Chloramphenicol adenyltransferase and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143001
component: BBa_B0012
component: BBa_K143012
component: BBa_K143021
component: BBa_B0010
component: BBa_J31005
sequence annotation: BBa_K143021
sequence annotation: BBa_J31005
sequence annotation: BBa_B0012
sequence annotation: BBa_K143012
sequence annotation: BBa_B0010
sequence annotation: BBa_K143001
sequence: https://synbiohub.org/public/igem/BBa_K143074_sequence/1

BBa_K143001
type: Component
persistent identity: component1991897
display id: component1991897
version: 1
top level: BBa_K143074
access: public
definition: amyE 5 IS

BBa_B0012
type: Component
persistent identity: component1991907
display id: component1991907
version: 1
top level: BBa_K143074
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_K143012
type: Component
persistent identity: component1991913
display id: component1991913
version: 1
top level: BBa_K143074
access: public
definition: Pveg

BBa_K143012
type: Component
persistent identity: component1991900
display id: component1991900
version: 1
top level: BBa_K143074
access: public
definition: Pveg

BBa_K143021
type: Component
persistent identity: component1991902
display id: component1991902
version: 1
top level: BBa_K143074
access: public
definition: RBS-spoVG

BBa_B0010
type: Component
persistent identity: component1991905
display id: component1991905
version: 1
top level: BBa_K143074
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_J31005
type: Component
persistent identity: component1991904
display id: component1991904
version: 1
top level: BBa_K143074
access: public
definition: https://synbiohub.org/public/igem/BBa_J31005/1

BBa_K143021
type: Component
persistent identity: component1991915
display id: component1991915
version: 1
top level: BBa_K143074
access: public
definition: RBS-spoVG

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1991902
display id: annotation1991902
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991902/range1991902/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143074/annotation1991902/range1991902/1
type: Range
persistent identity: range1991902
display id: range1991902
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 636
end: 647
orientation: inline

BBa_J31005
type: SequenceAnnotation
persistent identity: annotation1991904
display id: annotation1991904
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991904/range1991904/1
component: BBa_J31005

https://synbiohub.org/public/igem/BBa_K143074/annotation1991904/range1991904/1
type: Range
persistent identity: range1991904
display id: range1991904
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 654
end: 1313
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1991907
display id: annotation1991907
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991907/range1991907/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143074/annotation1991907/range1991907/1
type: Range
persistent identity: range1991907
display id: range1991907
version: 1
direction: direction/forward
top level: BBa_K143074
start: 1410
end: 1450
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1991913
display id: annotation1991913
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991913/range1991913/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143074/annotation1991913/range1991913/1
type: Range
persistent identity: range1991913
display id: range1991913
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 1459
end: 1555
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1991905
display id: annotation1991905
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991905/range1991905/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143074/annotation1991905/range1991905/1
type: Range
persistent identity: range1991905
display id: range1991905
version: 1
direction: direction/forward
top level: BBa_K143074
start: 1322
end: 1401
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation1991900
display id: annotation1991900
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991900/range1991900/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143074/annotation1991900/range1991900/1
type: Range
persistent identity: range1991900
display id: range1991900
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 531
end: 627
orientation: inline

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1991897
display id: annotation1991897
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991897/range1991897/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143074/annotation1991897/range1991897/1
type: Range
persistent identity: range1991897
display id: range1991897
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 1
end: 522
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1991915
display id: annotation1991915
version: 1
top level: BBa_K143074
location: https://synbiohub.org/public/igem/BBa_K143074/annotation1991915/range1991915/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143074/annotation1991915/range1991915/1
type: Range
persistent identity: range1991915
display id: range1991915
version: 1
direction: direction/reverse
top level: BBa_K143074
start: 1564
end: 1575
orientation: inline

BBa_K302010
type: ComponentDefinition
persistent identity: BBa K302010
display id: BBa_K302010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: sfp
creator: Harsh Sheth, Alan Koh, Steven Woodhouse
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: ''Bacillus subtilis'' 168 is unable to produce surfactin, a natural surfactant which helps in reducing surface tension and aids bacteria to swarm on a solid or semi solid medium. The ''sfp'' gene restores the capability to produce surfactin.
mutable notes: Second TAA stop codon was added.
mutable provenance: ''Bacillus subtilis'' 3610 genomic DNA, by PCR.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Added TAA
sequence: https://synbiohub.org/public/igem/BBa_K302010_sequence/1

Added TAA
type: SequenceAnnotation
persistent identity: annotation2080974
display id: annotation2080974
version: 1
top level: BBa_K302010
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302010/annotation2080974/range2080974/1

https://synbiohub.org/public/igem/BBa_K302010/annotation2080974/range2080974/1
type: Range
persistent identity: range2080974
display id: range2080974
version: 1
direction: direction/forward
top level: BBa_K302010
start: 676
end: 678
orientation: inline

BBa_K104002
type: ComponentDefinition
persistent identity: BBa K104002
display id: BBa_K104002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Prom_spaRK
creator: Anil Wipat
created: 2009-09-22T11:00:00Z
modified: 2015-06-09T08:39:11Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is the sigma H type promoter that normally drives the expression of the spaRK operon in Bacillus subtilis ATCC6633. SigmaH promoters are normally active at the early onset of stationary phase growth.
mutable notes: This promoter forms part of the complex device BBa_K104001
mutable provenance: The part comes from the sequence of the spaRK operon from Genbank entry: Bacillus subtilis spaR and spaK genes, complete coding regions, gi|143569|gb|L07785.1|BACSPARK[143569]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Prom_spaRK
sequence: https://synbiohub.org/public/igem/BBa_K104002_sequence/1

Prom_spaRK
type: SequenceAnnotation
persistent identity: annotation2026719
display id: annotation2026719
version: 1
top level: BBa_K104002
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K104002/annotation2026719/range2026719/1

https://synbiohub.org/public/igem/BBa_K104002/annotation2026719/range2026719/1
type: Range
persistent identity: range2026719
display id: range2026719
version: 1
direction: direction/forward
top level: BBa_K104002
start: 1
end: 117
orientation: inline

BBa_K1364005
type: ComponentDefinition
persistent identity: BBa K1364005
display id: BBa_K1364005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg + Chitin Binding Protein for Bacillus subtilis
creator: Fourni?? Mathieu
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T08:34:56Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: bla
mutable notes: bla
mutable provenance: bla ba
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: Pveg
sequence annotation: Chitin Binding Domain
sequence annotation: STOP
sequence annotation: RBS Consensus K090505
sequence annotation: Cell Wall Binding
sequence annotation: Linker
sequence annotation: Binding protein
sequence annotation: Double terminator B0015
sequence: https://synbiohub.org/public/igem/BBa_K1364005_sequence/1

Pveg
type: SequenceAnnotation
persistent identity: annotation2412456
display id: annotation2412456
version: 1
top level: BBa_K1364005
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412456/range2412456/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412456/range2412456/1
type: Range
persistent identity: range2412456
display id: range2412456
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 1
end: 237
orientation: inline

Chitin Binding Domain
type: SequenceAnnotation
persistent identity: annotation2412833
display id: annotation2412833
version: 1
top level: BBa_K1364005
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412833/range2412833/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412833/range2412833/1
type: Range
persistent identity: range2412833
display id: range2412833
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 1212
end: 1415
orientation: inline

STOP
type: SequenceAnnotation
persistent identity: annotation2412482
display id: annotation2412482
version: 1
top level: BBa_K1364005
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412482/range2412482/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412482/range2412482/1
type: Range
persistent identity: range2412482
display id: range2412482
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 1413
end: 1415
orientation: inline

RBS Consensus K090505
type: SequenceAnnotation
persistent identity: annotation2412457
display id: annotation2412457
version: 1
top level: BBa_K1364005
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412457/range2412457/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412457/range2412457/1
type: Range
persistent identity: range2412457
display id: range2412457
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 246
end: 256
orientation: inline

Cell Wall Binding
type: SequenceAnnotation
persistent identity: annotation2412830
display id: annotation2412830
version: 1
top level: BBa_K1364005
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412830/range2412830/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412830/range2412830/1
type: Range
persistent identity: range2412830
display id: range2412830
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 257
end: 1211
orientation: inline

Linker
type: SequenceAnnotation
persistent identity: annotation2412831
display id: annotation2412831
version: 1
top level: BBa_K1364005
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412831/range2412831/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412831/range2412831/1
type: Range
persistent identity: range2412831
display id: range2412831
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 1212
end: 1230
orientation: inline

Binding protein
type: SequenceAnnotation
persistent identity: annotation2412458
display id: annotation2412458
version: 1
top level: BBa_K1364005
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412458/range2412458/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412458/range2412458/1
type: Range
persistent identity: range2412458
display id: range2412458
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 257
end: 1415
orientation: inline

Double terminator B0015
type: SequenceAnnotation
persistent identity: annotation2412459
display id: annotation2412459
version: 1
top level: BBa_K1364005
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1364005/annotation2412459/range2412459/1

https://synbiohub.org/public/igem/BBa_K1364005/annotation2412459/range2412459/1
type: Range
persistent identity: range2412459
display id: range2412459
version: 1
direction: direction/forward
top level: BBa_K1364005
start: 1415
end: 1543
orientation: inline

pSBBs1C
type: ComponentDefinition
persistent identity: BBa K823023
display id: BBa_K823023
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs1C: Empty backbone for integration into Bacillus subtilis amyE locus
creator: Jara Radeck
created: 2012-08-20T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: This part is an empty backbone vector for the usage in Bacillus subtilis. It integrates in the amyE locus and can be selected with Chloramphenicol (cat gene). It has a ampicillin resistance for cloning in E.coli. It originates from the Bacillus vector pDG1662. This BioBrick is part of the LMU 2012 Bacillus BioBrick Box project: http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks
mutable notes: We removed any forbidden restriction sites by site-directed mutagenesis PCR.
mutable provenance: This backbone is an igem compatible version of the Bacillus vector pDG1662
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: bla
sequence annotation: amyE
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_K823023_sequence/1

bla
type: SequenceAnnotation
persistent identity: annotation2180238
display id: annotation2180238
version: 1
top level: pSBBs1C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823023/annotation2180238/range2180238/1

https://synbiohub.org/public/igem/BBa_K823023/annotation2180238/range2180238/1
type: Range
persistent identity: range2180238
display id: range2180238
version: 1
direction: direction/reverse
top level: pSBBs1C
start: 4361
end: 5221
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2180237
display id: annotation2180237
version: 1
top level: pSBBs1C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823023/annotation2180237/range2180237/1

https://synbiohub.org/public/igem/BBa_K823023/annotation2180237/range2180237/1
type: Range
persistent identity: range2180237
display id: range2180237
version: 1
direction: direction/forward
top level: pSBBs1C
start: 1379
end: 2407
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2180239
display id: annotation2180239
version: 1
top level: pSBBs1C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823023/annotation2180239/range2180239/1

https://synbiohub.org/public/igem/BBa_K823023/annotation2180239/range2180239/1
type: Range
persistent identity: range2180239
display id: range2180239
version: 1
direction: direction/forward
top level: pSBBs1C
start: 5546
end: 6066
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2180236
display id: annotation2180236
version: 1
top level: pSBBs1C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823023/annotation2180236/range2180236/1

https://synbiohub.org/public/igem/BBa_K823023/annotation2180236/range2180236/1
type: Range
persistent identity: range2180236
display id: range2180236
version: 1
direction: direction/forward
top level: pSBBs1C
start: 358
end: 1008
orientation: inline

B. S. Vect
type: ComponentDefinition
persistent identity: BBa K606003
display id: BBa_K606003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Multi-host replicative plasmid, for B. Subtilis and E. Coli
creator: Cyrille Pauthenier
created: 2011-07-24T11:00:00Z
modified: 2015-05-08T01:12:51Z
discontinued: true
dominant: false
experience: experience/Issues
group u list: _778_
m user id: 0
owner id: 8998
owning group id: 9
sample status: Discontinued
status: status/Deleted
bookmark: false
mutable description: This plasmid is an multihost plasmid, replicated both in E. Coli at high copy number (>200) and low copy in B. Subtilis (about 20). This plasmid is ideal for importing parts in Subtilis: all the cloning can be done in E. Coli, as well as the amplification. Once the plasmid is extracted, you can incorporate it directly in B. Subtilis using electroporation. This plasmid is Ampicilyn resistant in E. Coli, and is tetracycline resistant in both B. Subtilis and E. Coli. The biobrick BBa_J04450 is inserted between the E X and SP site, has a negative cloning control in E. Coli
mutable notes: The EcoRI site has to be eliminated and the Biobricks prefixes and suffixes were recovered
mutable provenance: The plasmid was obtained from Harald Putzer laboratory at the IBPC [http://www.ibpc.fr/UPR9073/equipe_HaraldJackie/AccueilJAP_HPGB.htm] . This is the fusion of the commercial plasmids pBC16-1 and pTZ19R via the site EcoRI. This site has been eliminated by the 2011 iGEM Paris Team by quick change mutagenesis, and the multicloning site was transformed into the biobrick standards.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: Beta lactamase peptide (ampicilin)
sequence annotation: LacZ alpha disabled by the cloning
sequence annotation: Tetracycline resistance gene
sequence annotation: pT7 promoter
sequence annotation: DNA minor replication origin OriL
sequence annotation: DNA: Major Replication origin OriU
sequence annotation: pBC16-1 plasmid (B.S. plasmid)
sequence annotation: Replication origin for E. Coli
sequence annotation: Biobrick EX
sequence annotation: SYNPTZ19R
sequence annotation: Biobrick SP
sequence: https://synbiohub.org/public/igem/BBa_K606003_sequence/1

Beta lactamase peptide (ampicilin)
type: SequenceAnnotation
persistent identity: annotation2124968
display id: annotation2124968
version: 1
top level: B. S. Vect
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124968/range2124968/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124968/range2124968/1
type: Range
persistent identity: range2124968
display id: range2124968
version: 1
direction: direction/reverse
top level: B. S. Vect
start: 3835
end: 4692
orientation: inline

LacZ alpha disabled by the cloning
type: SequenceAnnotation
persistent identity: annotation2124966
display id: annotation2124966
version: 1
top level: B. S. Vect
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124966/range2124966/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124966/range2124966/1
type: Range
persistent identity: range2124966
display id: range2124966
version: 1
direction: direction/reverse
top level: B. S. Vect
start: 3076
end: 3244
orientation: inline

Tetracycline resistance gene
type: SequenceAnnotation
persistent identity: annotation2124963
display id: annotation2124963
version: 1
top level: B. S. Vect
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124963/range2124963/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124963/range2124963/1
type: Range
persistent identity: range2124963
display id: range2124963
version: 1
direction: direction/forward
top level: B. S. Vect
start: 80
end: 1468
orientation: inline

pT7 promoter
type: SequenceAnnotation
persistent identity: annotation2124970
display id: annotation2124970
version: 1
top level: B. S. Vect
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124970/range2124970/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124970/range2124970/1
type: Range
persistent identity: range2124970
display id: range2124970
version: 1
direction: direction/forward
top level: B. S. Vect
start: 5871
end: 5893
orientation: inline

DNA minor replication origin OriL
type: SequenceAnnotation
persistent identity: annotation2124964
display id: annotation2124964
version: 1
top level: B. S. Vect
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124964/range2124964/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124964/range2124964/1
type: Range
persistent identity: range2124964
display id: range2124964
version: 1
direction: direction/forward
top level: B. S. Vect
start: 2120
end: 2398
orientation: inline

DNA: Major Replication origin OriU
type: SequenceAnnotation
persistent identity: annotation2124965
display id: annotation2124965
version: 1
top level: B. S. Vect
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124965/range2124965/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124965/range2124965/1
type: Range
persistent identity: range2124965
display id: range2124965
version: 1
direction: direction/forward
top level: B. S. Vect
start: 2813
end: 2838
orientation: inline

pBC16-1 plasmid (B.S. plasmid)
type: SequenceAnnotation
persistent identity: annotation2124962
display id: annotation2124962
version: 1
top level: B. S. Vect
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124962/range2124962/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124962/range2124962/1
type: Range
persistent identity: range2124962
display id: range2124962
version: 1
direction: direction/forward
top level: B. S. Vect
start: 22
end: 3072
orientation: inline

Replication origin for E. Coli
type: SequenceAnnotation
persistent identity: annotation2124969
display id: annotation2124969
version: 1
top level: B. S. Vect
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124969/range2124969/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124969/range2124969/1
type: Range
persistent identity: range2124969
display id: range2124969
version: 1
direction: direction/forward
top level: B. S. Vect
start: 4867
end: 5469
orientation: inline

Biobrick EX
type: SequenceAnnotation
persistent identity: annotation2124961
display id: annotation2124961
version: 1
top level: B. S. Vect
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124961/range2124961/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124961/range2124961/1
type: Range
persistent identity: range2124961
display id: range2124961
version: 1
direction: direction/reverse
top level: B. S. Vect
start: 1
end: 21
orientation: inline

SYNPTZ19R
type: SequenceAnnotation
persistent identity: annotation2124967
display id: annotation2124967
version: 1
top level: B. S. Vect
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124967/range2124967/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124967/range2124967/1
type: Range
persistent identity: range2124967
display id: range2124967
version: 1
direction: direction/reverse
top level: B. S. Vect
start: 3078
end: 5904
orientation: inline

Biobrick SP
type: SequenceAnnotation
persistent identity: annotation2124971
display id: annotation2124971
version: 1
top level: B. S. Vect
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K606003/annotation2124971/range2124971/1

https://synbiohub.org/public/igem/BBa_K606003/annotation2124971/range2124971/1
type: Range
persistent identity: range2124971
display id: range2124971
version: 1
direction: direction/forward
top level: B. S. Vect
start: 5905
end: 5924
orientation: inline

BBa_K1085012
type: ComponentDefinition
persistent identity: BBa K1085012
display id: BBa_K1085012
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon EstA Strep-tag SpiderSilkSubunitN1
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:09:46Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitN1) with a Bacillus Subtilis ribosome binding site (RBS), a coding sequence for the signal protein EstA and a Strep-tag infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. The EstA codes for a signal protein that that is there to fasilitate secretion of the protein. The Strep-tag, fused at the N terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin. SubunitN1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: estA (Bac. sub.)
sequence annotation: strep
sequence annotation: spidersilk subunit N1
sequence annotation: starting codon (ATG)
sequence annotation: RBS
sequence: https://synbiohub.org/public/igem/BBa_K1085012_sequence/1

estA (Bac. sub.)
type: SequenceAnnotation
persistent identity: annotation2362251
display id: annotation2362251
version: 1
top level: BBa_K1085012
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085012/annotation2362251/range2362251/1

https://synbiohub.org/public/igem/BBa_K1085012/annotation2362251/range2362251/1
type: Range
persistent identity: range2362251
display id: range2362251
version: 1
direction: direction/forward
top level: BBa_K1085012
start: 17
end: 649
orientation: inline

strep
type: SequenceAnnotation
persistent identity: annotation2362252
display id: annotation2362252
version: 1
top level: BBa_K1085012
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085012/annotation2362252/range2362252/1

https://synbiohub.org/public/igem/BBa_K1085012/annotation2362252/range2362252/1
type: Range
persistent identity: range2362252
display id: range2362252
version: 1
direction: direction/forward
top level: BBa_K1085012
start: 656
end: 679
orientation: inline

spidersilk subunit N1
type: SequenceAnnotation
persistent identity: annotation2362253
display id: annotation2362253
version: 1
top level: BBa_K1085012
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085012/annotation2362253/range2362253/1

https://synbiohub.org/public/igem/BBa_K1085012/annotation2362253/range2362253/1
type: Range
persistent identity: range2362253
display id: range2362253
version: 1
direction: direction/forward
top level: BBa_K1085012
start: 698
end: 838
orientation: inline

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2362250
display id: annotation2362250
version: 1
top level: BBa_K1085012
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085012/annotation2362250/range2362250/1

https://synbiohub.org/public/igem/BBa_K1085012/annotation2362250/range2362250/1
type: Range
persistent identity: range2362250
display id: range2362250
version: 1
direction: direction/forward
top level: BBa_K1085012
start: 14
end: 16
orientation: inline

RBS
type: SequenceAnnotation
persistent identity: annotation2362249
display id: annotation2362249
version: 1
top level: BBa_K1085012
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1085012/annotation2362249/range2362249/1

https://synbiohub.org/public/igem/BBa_K1085012/annotation2362249/range2362249/1
type: Range
persistent identity: range2362249
display id: range2362249
version: 1
direction: direction/forward
top level: BBa_K1085012
start: 1
end: 6
orientation: inline

BBa_K1085000
type: ComponentDefinition
persistent identity: BBa K1085000
display id: BBa_K1085000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon Strep-tag SpiderSilkSubunitE1
creator: Claudio Tiecher
created: 2013-08-29T11:00:00Z
modified: 2016-02-10T01:07:41Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16111
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: The part contains the coding sequence for part of the spider silk protein together with Bacillus Subtilis ribosome binding site (RBS) and the Strep-tag.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Strep
sequence annotation: starting codon (ATG)
sequence annotation: RBS
sequence annotation: spidersilk subunit E1
sequence: https://synbiohub.org/public/igem/BBa_K1085000_sequence/1

Strep
type: SequenceAnnotation
persistent identity: annotation2333670
display id: annotation2333670
version: 1
top level: BBa_K1085000
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085000/annotation2333670/range2333670/1

https://synbiohub.org/public/igem/BBa_K1085000/annotation2333670/range2333670/1
type: Range
persistent identity: range2333670
display id: range2333670
version: 1
direction: direction/forward
top level: BBa_K1085000
start: 17
end: 40
orientation: inline

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2338313
display id: annotation2338313
version: 1
top level: BBa_K1085000
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085000/annotation2338313/range2338313/1

https://synbiohub.org/public/igem/BBa_K1085000/annotation2338313/range2338313/1
type: Range
persistent identity: range2338313
display id: range2338313
version: 1
direction: direction/forward
top level: BBa_K1085000
start: 14
end: 16
orientation: inline

RBS
type: SequenceAnnotation
persistent identity: annotation2333669
display id: annotation2333669
version: 1
top level: BBa_K1085000
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1085000/annotation2333669/range2333669/1

https://synbiohub.org/public/igem/BBa_K1085000/annotation2333669/range2333669/1
type: Range
persistent identity: range2333669
display id: range2333669
version: 1
direction: direction/forward
top level: BBa_K1085000
start: 1
end: 6
orientation: inline

spidersilk subunit E1
type: SequenceAnnotation
persistent identity: annotation2333671
display id: annotation2333671
version: 1
top level: BBa_K1085000
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085000/annotation2333671/range2333671/1

https://synbiohub.org/public/igem/BBa_K1085000/annotation2333671/range2333671/1
type: Range
persistent identity: range2333671
display id: range2333671
version: 1
direction: direction/forward
top level: BBa_K1085000
start: 59
end: 268
orientation: inline

BBa_K1197005
type: ComponentDefinition
persistent identity: BBa K1197005
display id: BBa_K1197005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: MazF +RBS (SpoVG) + LacI + DT
creator: Emre İlpars
created: 2013-09-21T11:00:00Z
modified: 2015-06-08T11:17:48Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1511_
m user id: 4206
owner id: 12422
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: .
mutable notes: .
mutable provenance: .
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K302033
component: BBa_K1197004
sequence annotation: BBa_K1197004
sequence annotation: BBa_K302033
sequence: https://synbiohub.org/public/igem/BBa_K1197005_sequence/1

BBa_K302033
type: Component
persistent identity: component2357896
display id: component2357896
version: 1
top level: BBa_K1197005
access: public
definition: BBa_K302033

BBa_K1197004
type: Component
persistent identity: component2357907
display id: component2357907
version: 1
top level: BBa_K1197005
access: public
definition: BBa_K1197004

BBa_K1197004
type: SequenceAnnotation
persistent identity: annotation2357907
display id: annotation2357907
version: 1
top level: BBa_K1197005
location: https://synbiohub.org/public/igem/BBa_K1197005/annotation2357907/range2357907/1
component: BBa_K1197004

https://synbiohub.org/public/igem/BBa_K1197005/annotation2357907/range2357907/1
type: Range
persistent identity: range2357907
display id: range2357907
version: 1
direction: direction/reverse
top level: BBa_K1197005
start: 348
end: 1588
orientation: inline

BBa_K302033
type: SequenceAnnotation
persistent identity: annotation2357896
display id: annotation2357896
version: 1
top level: BBa_K1197005
location: https://synbiohub.org/public/igem/BBa_K1197005/annotation2357896/range2357896/1
component: BBa_K302033

https://synbiohub.org/public/igem/BBa_K1197005/annotation2357896/range2357896/1
type: Range
persistent identity: range2357896
display id: range2357896
version: 1
direction: direction/reverse
top level: BBa_K1197005
start: 1
end: 339
orientation: inline

BBa_K1351001
type: ComponentDefinition
persistent identity: BBa K1351001
display id: BBa_K1351001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Contactin-4-derived peptide binding to NADH Oxidase of S. pneumoniae
creator: Mona Dotzler
created: 2014-10-02T11:00:00Z
modified: 2015-06-01T12:51:25Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Short peptide of 13 amino acids corresponding to amino acids of the human protein Contactin-4 (isoform 3, UniProt Q8IWV2-3). It has been shown to bind to NADH oxidase (NOX) of Streptococcus pneumoniae and inhibit bacterial binding to human A549 cells (Muchnik et. al., 2013). Displayed on the surface of Bacillus subtilis, it should enable B. subtilis to bind specifically to S. pneumoniae. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: For generation of the part's nucleotide sequence, the amino acid sequence of the peptide (Muchnik et. al., 2013) was reverse transcribed with regard to the codon usage of Bacillus subtilis. Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
mutable provenance: The part was generated by annealing of artificially synthesized oligonucletides: C4P_ENX_SD_Ngo_precutEP_fwd: AATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG TGGGAATGTAAAGCGAACGGAAGACCGAAACCGACATAT ACCGGTtaatACTAGTagcggccgCTGCA C4P_SNP_Age_precutEP_rev: GcggccgctACTAGTattaACCGGT ATATGTCGGTTTCGGTCTTCCGTTCGCTTTACATTCCCACATGCCGGCttcctccttacTCTAGAagcggccgcG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351001_sequence/1

BBa_K541003
type: ComponentDefinition
persistent identity: BBa K541003
display id: BBa_K541003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin 1A with promoter and RBS
creator: Mustafa Elitok
created: 2011-08-15T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: true
experience: experience/None
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli.
mutable notes: Optimized for both E.coli and B.subtilis
mutable provenance: Cephalopod
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
sequence annotation: end of LacI coding region (inactive)
sequence annotation: start
sequence annotation: BBa_R0010
sequence annotation: LacI binding site
sequence annotation: -10
sequence annotation: -35
sequence annotation: BBa_B0034
sequence annotation: CAP binding site
sequence annotation: conserved
sequence annotation: Reflectin
sequence annotation: BBa_K541013
sequence: https://synbiohub.org/public/igem/BBa_K541003_sequence/1

end of LacI coding region (inactive)
type: SequenceAnnotation
persistent identity: annotation2125109
display id: annotation2125109
version: 1
top level: BBa_K541003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125109/range2125109/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125109/range2125109/1
type: Range
persistent identity: range2125109
display id: range2125109
version: 1
direction: direction/forward
top level: BBa_K541003
start: 1
end: 88
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2125114
display id: annotation2125114
version: 1
top level: BBa_K541003
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125114/range2125114/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125114/range2125114/1
type: Range
persistent identity: range2125114
display id: range2125114
version: 1
direction: direction/forward
top level: BBa_K541003
start: 173
end: 173
orientation: inline

BBa_R0010
type: SequenceAnnotation
persistent identity: annotation2125108
display id: annotation2125108
version: 1
top level: BBa_K541003
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125108/range2125108/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125108/range2125108/1
type: Range
persistent identity: range2125108
display id: range2125108
version: 1
direction: direction/forward
top level: BBa_K541003
start: 1
end: 200
orientation: inline

LacI binding site
type: SequenceAnnotation
persistent identity: annotation2125113
display id: annotation2125113
version: 1
top level: BBa_K541003
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125113/range2125113/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125113/range2125113/1
type: Range
persistent identity: range2125113
display id: range2125113
version: 1
direction: direction/forward
top level: BBa_K541003
start: 166
end: 200
orientation: inline

-10
type: SequenceAnnotation
persistent identity: annotation2125112
display id: annotation2125112
version: 1
top level: BBa_K541003
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125112/range2125112/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125112/range2125112/1
type: Range
persistent identity: range2125112
display id: range2125112
version: 1
direction: direction/forward
top level: BBa_K541003
start: 161
end: 166
orientation: inline

-35
type: SequenceAnnotation
persistent identity: annotation2125111
display id: annotation2125111
version: 1
top level: BBa_K541003
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125111/range2125111/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125111/range2125111/1
type: Range
persistent identity: range2125111
display id: range2125111
version: 1
direction: direction/forward
top level: BBa_K541003
start: 137
end: 142
orientation: inline

BBa_B0034
type: SequenceAnnotation
persistent identity: annotation2125116
display id: annotation2125116
version: 1
top level: BBa_K541003
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125116/range2125116/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125116/range2125116/1
type: Range
persistent identity: range2125116
display id: range2125116
version: 1
direction: direction/reverse
top level: BBa_K541003
start: 209
end: 220
orientation: inline

CAP binding site
type: SequenceAnnotation
persistent identity: annotation2125110
display id: annotation2125110
version: 1
top level: BBa_K541003
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125110/range2125110/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125110/range2125110/1
type: Range
persistent identity: range2125110
display id: range2125110
version: 1
direction: direction/forward
top level: BBa_K541003
start: 89
end: 126
orientation: inline

conserved
type: SequenceAnnotation
persistent identity: annotation2125115
display id: annotation2125115
version: 1
top level: BBa_K541003
role: feature/conserved
role: SO:0000330
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125115/range2125115/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125115/range2125115/1
type: Range
persistent identity: range2125115
display id: range2125115
version: 1
direction: direction/forward
top level: BBa_K541003
start: 213
end: 216
orientation: inline

Reflectin
type: SequenceAnnotation
persistent identity: annotation2125117
display id: annotation2125117
version: 1
top level: BBa_K541003
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125117/range2125117/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125117/range2125117/1
type: Range
persistent identity: range2125117
display id: range2125117
version: 1
direction: direction/forward
top level: BBa_K541003
start: 227
end: 1081
orientation: inline

BBa_K541013
type: SequenceAnnotation
persistent identity: annotation2125118
display id: annotation2125118
version: 1
top level: BBa_K541003
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K541003/annotation2125118/range2125118/1

https://synbiohub.org/public/igem/BBa_K541003/annotation2125118/range2125118/1
type: Range
persistent identity: range2125118
display id: range2125118
version: 1
direction: direction/reverse
top level: BBa_K541003
start: 227
end: 1081
orientation: inline

pyrD 5 IS
type: ComponentDefinition
persistent identity: BBa K143008
display id: BBa_K143008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 5??? Integration Sequence for the pyrD locus of B. subtilis
creator: James Chappell
created: 2008-09-15T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Integration sequences allow DNA to be incorporated into the chromosome of a host cell at a specific locus using leading (5') and trailing (3') DNA sequences that are the same as those at a specific locus of the chromosome. The 5' integration sequence can be added to the front of a Biobrick construct and the 3' integration sequence specific for this locus ( BBa_K143004 ) to the rear of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The PyrD gene has been a target for numerous integration vectors, including the shuttle vectors pPyr-Cm (GenBank Accession number AY464558) and pPyr-Kan (GenBank Accession number AY464559) 1. Integration into the PyrD locus makes the ''B.subtilis'' auxotrophs for uracil and transformants require about 40ug/ml to allow for growth. This allows us to assay for integration by growing a replica plate with no supplemented uracil to negatively select for transformants.
mutable notes: The PyrD integration sequences were designed from the PyrD gene's Genbank entry#1 and identification of the sequence directly upstream of the gene on the chromosome (found using NCBI's sequence viewer). The upstream and PyrD gene sequence was analysed for restriction sites and primers (with biobrick prefix and suffix sequences) for two approximately equally sized integration sequences were desgined.
mutable provenance: The 5??? integration sequence was taken from the B.subtilis chromosome and is homologous to the chromosome from a few hundred bp upstream of the gene's start codon until 300 bp into the gene. The part was synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: PyrD 5' Integration Sequence
sequence: https://synbiohub.org/public/igem/BBa_K143008_sequence/1

PyrD 5' Integration Sequence
type: SequenceAnnotation
persistent identity: annotation1977518
display id: annotation1977518
version: 1
top level: pyrD 5 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143008/annotation1977518/range1977518/1

https://synbiohub.org/public/igem/BBa_K143008/annotation1977518/range1977518/1
type: Range
persistent identity: range1977518
display id: range1977518
version: 1
direction: direction/forward
top level: pyrD 5 IS
start: 1
end: 468
orientation: inline

BBa_K090402
type: ComponentDefinition
persistent identity: BBa K090402
display id: BBa_K090402
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: B. subtilis Episomal Vector with Constitutive GFP
creator: Daniel Goodman
created: 2008-10-29T12:00:00Z
modified: 2015-06-09T09:16:11Z
discontinued: false
dominant: false
group u list: _188_
m user id: 4206
owner id: 3501
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This episomal vector has within its BioBrick region a constitutively expressed GFP gene. It uses the pUpp strong constitutive promoter and a consensus Bacillus RBS sequence.
mutable notes: To build this part, we used 4 different linear DNA pieces assembled with 15 base pair homologous regions PCRed to the ends. These 4 different pieces were then assembled via the InFusion assembly method by Clontech.
mutable provenance: See data for BBa_K90401. This part is the same, but with the pUpp promoter, a gram-positive RBS, and a GFP with terminator.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_B0012
component: BBa_B0010
component: BBa_K090505
component: BBa_K090504
component: BBa_E0040
component: BBa_K090401
sequence annotation: BBa_K090505
sequence annotation: BBa_K090504
sequence annotation: BBa_K090401
sequence annotation: BBa_B0012
sequence annotation: BBa_B0010
sequence annotation: BBa_E0040
sequence: https://synbiohub.org/public/igem/BBa_K090402_sequence/1

BBa_B0012
type: Component
persistent identity: component1997013
display id: component1997013
version: 1
top level: BBa_K090402
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0010
type: Component
persistent identity: component1997011
display id: component1997011
version: 1
top level: BBa_K090402
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_K090505
type: Component
persistent identity: component1997008
display id: component1997008
version: 1
top level: BBa_K090402
access: public
definition: BBa_K090505

BBa_K090504
type: Component
persistent identity: component1997006
display id: component1997006
version: 1
top level: BBa_K090402
access: public
definition: https://synbiohub.org/public/igem/BBa_K090504/1

BBa_E0040
type: Component
persistent identity: component1997010
display id: component1997010
version: 1
top level: BBa_K090402
access: public
definition: GFP

BBa_K090401
type: Component
persistent identity: component1997002
display id: component1997002
version: 1
top level: BBa_K090402
access: public
definition: https://synbiohub.org/public/igem/BBa_K090401/1

BBa_K090505
type: SequenceAnnotation
persistent identity: annotation1997008
display id: annotation1997008
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997008/range1997008/1
component: BBa_K090505

https://synbiohub.org/public/igem/BBa_K090402/annotation1997008/range1997008/1
type: Range
persistent identity: range1997008
display id: range1997008
version: 1
direction: direction/reverse
top level: BBa_K090402
start: 5464
end: 5474
orientation: inline

BBa_K090504
type: SequenceAnnotation
persistent identity: annotation1997006
display id: annotation1997006
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997006/range1997006/1
component: BBa_K090504

https://synbiohub.org/public/igem/BBa_K090402/annotation1997006/range1997006/1
type: Range
persistent identity: range1997006
display id: range1997006
version: 1
direction: direction/reverse
top level: BBa_K090402
start: 5217
end: 5455
orientation: inline

BBa_K090401
type: SequenceAnnotation
persistent identity: annotation1997002
display id: annotation1997002
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997002/range1997002/1
component: BBa_K090401

https://synbiohub.org/public/igem/BBa_K090402/annotation1997002/range1997002/1
type: Range
persistent identity: range1997002
display id: range1997002
version: 1
direction: direction/reverse
top level: BBa_K090402
start: 1
end: 5208
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1997013
display id: annotation1997013
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997013/range1997013/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K090402/annotation1997013/range1997013/1
type: Range
persistent identity: range1997013
display id: range1997013
version: 1
direction: direction/forward
top level: BBa_K090402
start: 6297
end: 6337
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1997011
display id: annotation1997011
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997011/range1997011/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K090402/annotation1997011/range1997011/1
type: Range
persistent identity: range1997011
display id: range1997011
version: 1
direction: direction/forward
top level: BBa_K090402
start: 6209
end: 6288
orientation: inline

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation1997010
display id: annotation1997010
version: 1
top level: BBa_K090402
location: https://synbiohub.org/public/igem/BBa_K090402/annotation1997010/range1997010/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_K090402/annotation1997010/range1997010/1
type: Range
persistent identity: range1997010
display id: range1997010
version: 1
direction: direction/reverse
top level: BBa_K090402
start: 5481
end: 6200
orientation: inline

SacB-EAK16
type: ComponentDefinition
persistent identity: BBa K143038
display id: BBa_K143038
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SacB-EAK16-II Fusion Protein
creator: Qin Qi
created: 2008-09-17T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3429
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: EAK16-II is a sixteen amino acid peptide that self-assembles to form β-sheet structures in an aqueous medium. The alternating positive and negative charges (--++--++) are responsible for creating an electrostatic attraction between adjacent peptides 1, triggering self-assembly when the EAK16-II peptides are exposed to physiological media or salt solution. When examined under SEM, a well-ordered nanofibre structure is formed by the association of the EAK16-II peptides and these nanofibres can futher aggregate to form a membranous 3D scaffold. SacB is a signal peptide used in the Sec-SRP (secretory signal recognition particle) pathway by ''B. subtilis''. Signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached) through an appropriate secretory pathway. In the case of the Sec-SRP signal peptide, they direct preproteins from the cytoplasm into the growth medium. SacB has been successfully used in the secretion of heterologous proteins such as acid-stable α-amylase, cystatin and interleukin-3 by B.subtilis 2.
mutable notes: BioBrick standard was applied to the SacB-EAK16-II Fusion Protein.
mutable provenance: EAK16-II is a segment from zuotin, a yeast protein. SacB was identified from the initial part of certain preprotein genes that utilises the the Sec-SRP secretory pathway 3. Both components were synthesised as a fusin protein by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: SacB
sequence annotation: start
sequence annotation: stop
sequence annotation: EAK16-II
sequence: https://synbiohub.org/public/igem/BBa_K143038_sequence/1

SacB
type: SequenceAnnotation
persistent identity: annotation1976411
display id: annotation1976411
version: 1
top level: SacB-EAK16
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143038/annotation1976411/range1976411/1

https://synbiohub.org/public/igem/BBa_K143038/annotation1976411/range1976411/1
type: Range
persistent identity: range1976411
display id: range1976411
version: 1
direction: direction/forward
top level: SacB-EAK16
start: 1
end: 96
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992726
display id: annotation1992726
version: 1
top level: SacB-EAK16
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143038/annotation1992726/range1992726/1

https://synbiohub.org/public/igem/BBa_K143038/annotation1992726/range1992726/1
type: Range
persistent identity: range1992726
display id: range1992726
version: 1
direction: direction/forward
top level: SacB-EAK16
start: 1
end: 3
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992728
display id: annotation1992728
version: 1
top level: SacB-EAK16
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143038/annotation1992728/range1992728/1

https://synbiohub.org/public/igem/BBa_K143038/annotation1992728/range1992728/1
type: Range
persistent identity: range1992728
display id: range1992728
version: 1
direction: direction/forward
top level: SacB-EAK16
start: 148
end: 150
orientation: inline

EAK16-II
type: SequenceAnnotation
persistent identity: annotation1992725
display id: annotation1992725
version: 1
top level: SacB-EAK16
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143038/annotation1992725/range1992725/1

https://synbiohub.org/public/igem/BBa_K143038/annotation1992725/range1992725/1
type: Range
persistent identity: range1992725
display id: range1992725
version: 1
direction: direction/forward
top level: SacB-EAK16
start: 97
end: 144
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992727
display id: annotation1992727
version: 1
top level: SacB-EAK16
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143038/annotation1992727/range1992727/1

https://synbiohub.org/public/igem/BBa_K143038/annotation1992727/range1992727/1
type: Range
persistent identity: range1992727
display id: range1992727
version: 1
direction: direction/forward
top level: SacB-EAK16
start: 145
end: 147
orientation: inline

BBa_K541506
type: ComponentDefinition
persistent identity: BBa K541506
display id: BBa_K541506
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin1A from Cephalopod
creator: Fazilet Guler
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 8463
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli.
mutable notes: Optimized for both B.subtilis and E.coli
mutable provenance: Cephalopod
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: Reflectin
sequence: https://synbiohub.org/public/igem/BBa_K541506_sequence/1

Reflectin
type: SequenceAnnotation
persistent identity: annotation2123461
display id: annotation2123461
version: 1
top level: BBa_K541506
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K541506/annotation2123461/range2123461/1

https://synbiohub.org/public/igem/BBa_K541506/annotation2123461/range2123461/1
type: Range
persistent identity: range2123461
display id: range2123461
version: 1
direction: direction/forward
top level: BBa_K541506
start: 1
end: 855
orientation: inline

GFP_His
type: ComponentDefinition
persistent identity: BBa K863121
display id: BBa_K863121
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: green fluorescent protein derived from jellyfish Aequeora victoria wild-type GFP (His-tag)
creator: Moritz M??ller
created: 2012-09-19T11:00:00Z
modified: 2016-01-25T01:33:16Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1123_
m user id: 4206
owner id: 13080
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Untagged version of gfp from Repressilator reporter. See the [http://partsregistry.org/wiki/index.php?title=Part:BBa_E0040 untagged version] for source information.
mutable notes: Added Freiburg-restriction-sites for in frame assembly.
mutable provenance: [http://partsregistry.org/Part:BBa_I13522 BBa_I13522]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: ATG
sequence annotation: NgoMIV
sequence annotation: AgeI
sequence annotation: BBa_E0040
sequence annotation: His-Tag
sequence annotation: TAA
sequence: https://synbiohub.org/public/igem/BBa_K863121_sequence/1

ATG
type: SequenceAnnotation
persistent identity: annotation2187748
display id: annotation2187748
version: 1
top level: GFP_His
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187748/range2187748/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187748/range2187748/1
type: Range
persistent identity: range2187748
display id: range2187748
version: 1
direction: direction/forward
top level: GFP_His
start: 1
end: 3
orientation: inline

NgoMIV
type: SequenceAnnotation
persistent identity: annotation2187747
display id: annotation2187747
version: 1
top level: GFP_His
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187747/range2187747/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187747/range2187747/1
type: Range
persistent identity: range2187747
display id: range2187747
version: 1
direction: direction/forward
top level: GFP_His
start: 4
end: 9
orientation: inline

AgeI
type: SequenceAnnotation
persistent identity: annotation2187756
display id: annotation2187756
version: 1
top level: GFP_His
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187756/range2187756/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187756/range2187756/1
type: Range
persistent identity: range2187756
display id: range2187756
version: 1
direction: direction/forward
top level: GFP_His
start: 742
end: 747
orientation: inline

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation2187765
display id: annotation2187765
version: 1
top level: GFP_His
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187765/range2187765/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187765/range2187765/1
type: Range
persistent identity: range2187765
display id: range2187765
version: 1
direction: direction/forward
top level: GFP_His
start: 10
end: 723
orientation: inline

His-Tag
type: SequenceAnnotation
persistent identity: annotation2187759
display id: annotation2187759
version: 1
top level: GFP_His
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187759/range2187759/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187759/range2187759/1
type: Range
persistent identity: range2187759
display id: range2187759
version: 1
direction: direction/forward
top level: GFP_His
start: 724
end: 741
orientation: inline

TAA
type: SequenceAnnotation
persistent identity: annotation2187751
display id: annotation2187751
version: 1
top level: GFP_His
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K863121/annotation2187751/range2187751/1

https://synbiohub.org/public/igem/BBa_K863121/annotation2187751/range2187751/1
type: Range
persistent identity: range2187751
display id: range2187751
version: 1
direction: direction/forward
top level: GFP_His
start: 748
end: 750
orientation: inline

BBa_K823002
type: ComponentDefinition
persistent identity: BBa K823002
display id: BBa_K823002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PlepA
creator: Korinna Kraft
created: 2012-07-15T11:00:00Z
modified: 2015-05-08T01:13:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12081
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: PlepA is the promoter of the PlepA gene of Bacillus subtilis. It is a constitutive promoter and does not contain a ribosome binding site.
mutable notes: no considerations
mutable provenance: Bacillus subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K823002_sequence/1

BBa_K1399002
type: ComponentDefinition
persistent identity: BBa K1399002
display id: BBa_K1399002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RFP from Discosoma striata (coral) with LAA-ssrA degradation tag (wt)
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:15Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: Mutant RFP from Discosoma striata (coral) (see part BBa_E1010) with added LAA-ssrA degradation tag (part BBa_M0050). The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYALAA and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The LAA tag is E. coli wild type ssrA tag and is reported to lead to very fast protein degradation, degrading GFP with rate -0.018 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease and SspB mediator concentrations; Protein stability; Km of binding to the protease; Temperature [3]. Mutant RFP from Discosoma striata (coral) (see part BBa_E1010) with added LAA-ssrA degradation tag (part BBa_M0050). The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYALAA and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The LAA tag is E. coli wild type ssrA tag and is reported to lead to very fast protein degradation, degrading GFP with rate -0.018 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease a…
mutable notes: The tag was attached to RFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (AAV in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: RFP comes from part BBa_E1010, tag sequence was obtained from part BBa_M0050, but same tag was also used in paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: start
sequence annotation: tag
sequence annotation: RFP
sequence: https://synbiohub.org/public/igem/BBa_K1399002_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383902
display id: annotation2383902
version: 1
top level: BBa_K1399002
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399002/annotation2383902/range2383902/1

https://synbiohub.org/public/igem/BBa_K1399002/annotation2383902/range2383902/1
type: Range
persistent identity: range2383902
display id: range2383902
version: 1
direction: direction/forward
top level: BBa_K1399002
start: 712
end: 714
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383898
display id: annotation2383898
version: 1
top level: BBa_K1399002
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399002/annotation2383898/range2383898/1

https://synbiohub.org/public/igem/BBa_K1399002/annotation2383898/range2383898/1
type: Range
persistent identity: range2383898
display id: range2383898
version: 1
direction: direction/forward
top level: BBa_K1399002
start: 1
end: 3
orientation: inline

tag
type: SequenceAnnotation
persistent identity: annotation2383900
display id: annotation2383900
version: 1
top level: BBa_K1399002
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399002/annotation2383900/range2383900/1

https://synbiohub.org/public/igem/BBa_K1399002/annotation2383900/range2383900/1
type: Range
persistent identity: range2383900
display id: range2383900
version: 1
direction: direction/forward
top level: BBa_K1399002
start: 676
end: 708
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383901
display id: annotation2383901
version: 1
top level: BBa_K1399002
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399002/annotation2383901/range2383901/1

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type: Range
persistent identity: range2383901
display id: range2383901
version: 1
direction: direction/forward
top level: BBa_K1399002
start: 709
end: 711
orientation: inline

RFP
type: SequenceAnnotation
persistent identity: annotation2383899
display id: annotation2383899
version: 1
top level: BBa_K1399002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399002/annotation2383899/range2383899/1

https://synbiohub.org/public/igem/BBa_K1399002/annotation2383899/range2383899/1
type: Range
persistent identity: range2383899
display id: range2383899
version: 1
direction: direction/forward
top level: BBa_K1399002
start: 4
end: 675
orientation: inline

Switch
type: ComponentDefinition
persistent identity: BBa K1185000
display id: BBa_K1185000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: B.subtilis Rod to L-form Switch
creator: Vincent Leonardo, Christopher Wall and Robert Mckiernan
created: 2013-08-14T11:00:00Z
modified: 2015-05-08T01:09:37Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1498_
m user id: 0
owner id: 16794
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: This BioBrick facilitates the switching of Bacillus subtilis cells between rod-shape to L-form, a cell wall-less form of bacteria. It consists of chloramphenicol acetyl-transferase (cat) gene and a xylose-controlled promoter (PxylR) which are flanked by ~300bp pbpB gene at the 5???end and ~300bp of murE gene at 3???end. These flanking sequences allows the integration of the BioBrick into the chromosome by homologous recombination replacing the region containing the end of pbpb gene and the beginning of the murE gene, which are involved in peptidoglycan biosynthesis. This event replaces the constituitive murE promoter with a PxylR upstream of the murE gene. Therefore, when xylose is present cell wall biosynthesis is switched on, giving rod cells. When xylose is not present, the cells will become L-forms. Simply transform the BioBrick into competent B. subtilis cells and through recombination it will integrate into cells chromosome. Plate out the transformants onto 1.5% lysogeny broth agar containing 5??g/ml Chloramphenicol and 0.8 %( w/v) xylose. This will give you rod cells containing biobrick. To get L-forms, inoculate some colonies into a solution containing an equal amount of nutrient broth and MSM. Also inoculate some transformants into the same media with the addition of 0.8 %( w/v) xylose to clarify that the switch BioBrick is working. Use microscopy to check the morphology of the cells in each media. L-forms will appear near spherical and can vary in size considerably.
mutable notes: There were 3 restriction sites that did not meet the RFC10 requirements, two EcoRI sites and one PstI. The first EcoRI restriction site was located 218bp into the whole BioBrick (inside pbpb region), we changed the sequence from GAATTC to GCATTC. The second restriction site was located 2287bp into the BioBrick in the spacer region between PxylR and murE, we changed it from GAATTC to GTATTC. The PstI site was located 197bp into the BioBrick in the pbpb region and was change from CTGCAG to CTTCAG.
mutable provenance: The part is the courtesy of Prof. Jeff Errington research group, and all the sequences come from the Bacillus subtilis genomic sequence. The pbpb section in the BioBrick was taken from end of the pbpb gene 1841-2151bp (309bp). Sequence acquired through microbes online VIMSS38051. The murE section was taken from the start of the murE gene 1-331bp. Sequence from microbes online VIMSS38053. The cat gene and PxylR gene were both come from the B. subtilis genome, but can also be found in the BioBrick Registry (BBa_K823020 and BBa_K143014).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: pbpb Homologous region
sequence annotation: xylose-controlled promoter (PxylR)
sequence annotation: murE RBS with spacers
sequence annotation: murE Homologous region
sequence annotation: BBa_K823020
sequence: https://synbiohub.org/public/igem/BBa_K1185000_sequence/1

pbpb Homologous region
type: SequenceAnnotation
persistent identity: annotation2331840
display id: annotation2331840
version: 1
top level: Switch
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1185000/annotation2331840/range2331840/1

https://synbiohub.org/public/igem/BBa_K1185000/annotation2331840/range2331840/1
type: Range
persistent identity: range2331840
display id: range2331840
version: 1
direction: direction/forward
top level: Switch
start: 1
end: 309
orientation: inline

xylose-controlled promoter (PxylR)
type: SequenceAnnotation
persistent identity: annotation2331842
display id: annotation2331842
version: 1
top level: Switch
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1185000/annotation2331842/range2331842/1

https://synbiohub.org/public/igem/BBa_K1185000/annotation2331842/range2331842/1
type: Range
persistent identity: range2331842
display id: range2331842
version: 1
direction: direction/forward
top level: Switch
start: 2147
end: 2227
orientation: inline

murE RBS with spacers
type: SequenceAnnotation
persistent identity: annotation2331843
display id: annotation2331843
version: 1
top level: Switch
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1185000/annotation2331843/range2331843/1

https://synbiohub.org/public/igem/BBa_K1185000/annotation2331843/range2331843/1
type: Range
persistent identity: range2331843
display id: range2331843
version: 1
direction: direction/forward
top level: Switch
start: 2228
end: 2292
orientation: inline

murE Homologous region
type: SequenceAnnotation
persistent identity: annotation2331844
display id: annotation2331844
version: 1
top level: Switch
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1185000/annotation2331844/range2331844/1

https://synbiohub.org/public/igem/BBa_K1185000/annotation2331844/range2331844/1
type: Range
persistent identity: range2331844
display id: range2331844
version: 1
direction: direction/forward
top level: Switch
start: 2293
end: 2623
orientation: inline

BBa_K823020
type: SequenceAnnotation
persistent identity: annotation2331841
display id: annotation2331841
version: 1
top level: Switch
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1185000/annotation2331841/range2331841/1

https://synbiohub.org/public/igem/BBa_K1185000/annotation2331841/range2331841/1
type: Range
persistent identity: range2331841
display id: range2331841
version: 1
direction: direction/forward
top level: Switch
start: 794
end: 1444
orientation: inline

BBa_K541027
type: ComponentDefinition
persistent identity: BBa K541027
display id: BBa_K541027
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Reflectin 1A (LipA) and LALF (LipA) protein for B.subtilis
creator: Mustafa Elitok
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli. On the other hand, Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: Optimized for B.subtilis
mutable provenance: LALF from horseshoe crab, Reflectin from Cephalopod and promoter-RBS from B.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence: https://synbiohub.org/public/igem/BBa_K541027_sequence/1

BBa_K1364010
type: ComponentDefinition
persistent identity: BBa K1364010
display id: BBa_K1364010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg-SpoVG + EcAMP-1
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T09:18:13Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K733013
component: BBa_K1162001
sequence annotation: BBa_K1162001
sequence annotation: BBa_K733013
sequence: https://synbiohub.org/public/igem/BBa_K1364010_sequence/1

BBa_K733013
type: Component
persistent identity: component2392879
display id: component2392879
version: 1
top level: BBa_K1364010
access: public
definition: https://synbiohub.org/public/igem/BBa_K733013/1

BBa_K1162001
type: Component
persistent identity: component2392882
display id: component2392882
version: 1
top level: BBa_K1364010
access: public
definition: https://synbiohub.org/public/igem/BBa_K1162001/1

BBa_K1162001
type: SequenceAnnotation
persistent identity: annotation2392882
display id: annotation2392882
version: 1
top level: BBa_K1364010
location: https://synbiohub.org/public/igem/BBa_K1364010/annotation2392882/range2392882/1
component: BBa_K1162001

https://synbiohub.org/public/igem/BBa_K1364010/annotation2392882/range2392882/1
type: Range
persistent identity: range2392882
display id: range2392882
version: 1
direction: direction/reverse
top level: BBa_K1364010
start: 116
end: 229
orientation: inline

BBa_K733013
type: SequenceAnnotation
persistent identity: annotation2392879
display id: annotation2392879
version: 1
top level: BBa_K1364010
location: https://synbiohub.org/public/igem/BBa_K1364010/annotation2392879/range2392879/1
component: BBa_K733013

https://synbiohub.org/public/igem/BBa_K1364010/annotation2392879/range2392879/1
type: Range
persistent identity: range2392879
display id: range2392879
version: 1
direction: direction/reverse
top level: BBa_K1364010
start: 1
end: 109
orientation: inline

BBa_K1364000
type: ComponentDefinition
persistent identity: BBa K1364000
display id: BBa_K1364000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: N-acetylatedGlucosamine based chemotaxis for Bacillus subtilis
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T08:38:27Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Translational Unit
role: SO:0000804
sequence annotation: RBS BBa_K780001
sequence annotation: Double terminator B0015
sequence annotation: Chemotaxis chimeric protein
sequence annotation: VCD_000306 31-310
sequence annotation: McpA 1 -37
sequence annotation: McpA 282-661
sequence: https://synbiohub.org/public/igem/BBa_K1364000_sequence/1

RBS BBa_K780001
type: SequenceAnnotation
persistent identity: annotation2399239
display id: annotation2399239
version: 1
top level: BBa_K1364000
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399239/range2399239/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399239/range2399239/1
type: Range
persistent identity: range2399239
display id: range2399239
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 1
end: 16
orientation: inline

Double terminator B0015
type: SequenceAnnotation
persistent identity: annotation2399243
display id: annotation2399243
version: 1
top level: BBa_K1364000
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399243/range2399243/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399243/range2399243/1
type: Range
persistent identity: range2399243
display id: range2399243
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 2211
end: 2239
orientation: inline

Chemotaxis chimeric protein
type: SequenceAnnotation
persistent identity: annotation2399244
display id: annotation2399244
version: 1
top level: BBa_K1364000
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399244/range2399244/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399244/range2399244/1
type: Range
persistent identity: range2399244
display id: range2399244
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 17
end: 2210
orientation: inline

VCD_000306 31-310
type: SequenceAnnotation
persistent identity: annotation2399241
display id: annotation2399241
version: 1
top level: BBa_K1364000
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399241/range2399241/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399241/range2399241/1
type: Range
persistent identity: range2399241
display id: range2399241
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 128
end: 967
orientation: inline

McpA 1 -37
type: SequenceAnnotation
persistent identity: annotation2399240
display id: annotation2399240
version: 1
top level: BBa_K1364000
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399240/range2399240/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399240/range2399240/1
type: Range
persistent identity: range2399240
display id: range2399240
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 17
end: 127
orientation: inline

McpA 282-661
type: SequenceAnnotation
persistent identity: annotation2399242
display id: annotation2399242
version: 1
top level: BBa_K1364000
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K1364000/annotation2399242/range2399242/1

https://synbiohub.org/public/igem/BBa_K1364000/annotation2399242/range2399242/1
type: Range
persistent identity: range2399242
display id: range2399242
version: 1
direction: direction/forward
top level: BBa_K1364000
start: 968
end: 2210
orientation: inline

BBa_K1399001
type: ComponentDefinition
persistent identity: BBa K1399001
display id: BBa_K1399001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RFP from Discosoma striata (coral) with LVA-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-17T11:00:00Z
modified: 2015-05-08T01:10:15Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: Mutant RFP from Discosoma striata (coral) (see part BBa_E1010) with added LVA-ssrA degradation tag. The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. This tag is commonly attached to repressor proteins for use in various gene networks (e.g., oscillators). The tag encodes peptide sequence AANDENYALVA and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The LVA tag is reported to lead to fast protein degradation, degrading GFP with rate -0.018 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease and SspB mediator concentrations; protein stability; Km of binding to the protease; temperature [3]. References: [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to RFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction sites. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (LVA in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: RFP comes from part BBa_E1010, tag sequence was obtained from paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: cds
sequence annotation: LVA-ssrA tag
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399001_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383876
display id: annotation2383876
version: 1
top level: BBa_K1399001
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399001/annotation2383876/range2383876/1

https://synbiohub.org/public/igem/BBa_K1399001/annotation2383876/range2383876/1
type: Range
persistent identity: range2383876
display id: range2383876
version: 1
direction: direction/forward
top level: BBa_K1399001
start: 712
end: 714
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383875
display id: annotation2383875
version: 1
top level: BBa_K1399001
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399001/annotation2383875/range2383875/1

https://synbiohub.org/public/igem/BBa_K1399001/annotation2383875/range2383875/1
type: Range
persistent identity: range2383875
display id: range2383875
version: 1
direction: direction/forward
top level: BBa_K1399001
start: 709
end: 711
orientation: inline

cds
type: SequenceAnnotation
persistent identity: annotation2383873
display id: annotation2383873
version: 1
top level: BBa_K1399001
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399001/annotation2383873/range2383873/1

https://synbiohub.org/public/igem/BBa_K1399001/annotation2383873/range2383873/1
type: Range
persistent identity: range2383873
display id: range2383873
version: 1
direction: direction/forward
top level: BBa_K1399001
start: 4
end: 675
orientation: inline

LVA-ssrA tag
type: SequenceAnnotation
persistent identity: annotation2383874
display id: annotation2383874
version: 1
top level: BBa_K1399001
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399001/annotation2383874/range2383874/1

https://synbiohub.org/public/igem/BBa_K1399001/annotation2383874/range2383874/1
type: Range
persistent identity: range2383874
display id: range2383874
version: 1
direction: direction/forward
top level: BBa_K1399001
start: 676
end: 708
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383872
display id: annotation2383872
version: 1
top level: BBa_K1399001
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399001/annotation2383872/range2383872/1

https://synbiohub.org/public/igem/BBa_K1399001/annotation2383872/range2383872/1
type: Range
persistent identity: range2383872
display id: range2383872
version: 1
direction: direction/forward
top level: BBa_K1399001
start: 1
end: 3
orientation: inline

BBa_K143079
type: ComponentDefinition
persistent identity: BBa K143079
display id: BBa_K143079
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg-spoVG GFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP gene under expresson of the Pveg promoter and spoVG RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the Pveg promoter and spoVG RBS (Combined part BBa_K143053 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, GFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter Pveg and RBS spoVG were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the Pveg-spoVG part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: true
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143075
component: BBa_K143074
sequence annotation: BBa_K143075
sequence annotation: BBa_K143074
sequence: https://synbiohub.org/public/igem/BBa_K143079_sequence/1

BBa_K143075
type: Component
persistent identity: component2232896
display id: component2232896
version: 1
top level: BBa_K143079
access: public
definition: BBa_K143075

BBa_K143074
type: Component
persistent identity: component2232885
display id: component2232885
version: 1
top level: BBa_K143079
access: public
definition: BBa_K143074

BBa_K143075
type: SequenceAnnotation
persistent identity: annotation2232896
display id: annotation2232896
version: 1
top level: BBa_K143079
location: https://synbiohub.org/public/igem/BBa_K143079/annotation2232896/range2232896/1
component: BBa_K143075

https://synbiohub.org/public/igem/BBa_K143079/annotation2232896/range2232896/1
type: Range
persistent identity: range2232896
display id: range2232896
version: 1
direction: direction/reverse
top level: BBa_K143079
start: 1582
end: 3448
orientation: inline

BBa_K143074
type: SequenceAnnotation
persistent identity: annotation2232885
display id: annotation2232885
version: 1
top level: BBa_K143079
location: https://synbiohub.org/public/igem/BBa_K143079/annotation2232885/range2232885/1
component: BBa_K143074

https://synbiohub.org/public/igem/BBa_K143079/annotation2232885/range2232885/1
type: Range
persistent identity: range2232885
display id: range2232885
version: 1
direction: direction/reverse
top level: BBa_K143079
start: 1
end: 1575
orientation: inline

BBa_K802006
type: ComponentDefinition
persistent identity: BBa K802006
display id: BBa_K802006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Surfactin generator for B. subtilis
creator: Ioana Sandu, Ga??l Chambonnier
created: 2012-09-24T11:00:00Z
modified: 2016-02-01T01:03:57Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1058_
m user id: 4206
owner id: 13266
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: In B. subtilis strains this part can induce the synthesis of surfactin, a lipopeptide with an antimicrobial activity and a powerful surfactant.
mutable notes: This part contains an Bacillus xylose inducible promoter, a RBS for Bacillus and the sfp gene. It can be used to induce surfactin production in Bacillus subtilis strains. However, the sfp gene does not code for the surfactin; it codes for an enzyme which catalyzes the synthesis of the lipoprotein surfactin. In order to overinduce the sfp production and therefore the surfactin synthesis in B. subtilis strains the culture media should be supplemented with xylose.
mutable provenance: The sfp gene was isolated from many B. subtilis strains (for example ATCC 21332).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K802006_sequence/1

BBa_K802009
type: ComponentDefinition
persistent identity: BBa K802009
display id: BBa_K802009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Sufactin generator and biofilm repressor for B. subtilis
creator: Ioana Sandu, Gael Chambonnier, Alex Mizgier, Marion Traouan
created: 2012-09-24T11:00:00Z
modified: 2016-02-12T09:05:33Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1058_
m user id: 4206
owner id: 13266
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part can be used to induce surfactin production (an antimicrobial lipopeptide) and to repress the biofilm formation in B. subtilis strains.
mutable notes: The part has 3 genes (sfp, abrB and lacI) under the control of the xylose inducible Pxyl promoter.
mutable provenance: The part was constructed from the assembly of 3 biobricks: BBa_K802006,BBa_K802007 and BBa_K802008.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
component: BBa_K802007
component: BBa_K802006
component: BBa_K802008
sequence annotation: BBa_K802008
sequence annotation: BBa_K802006
sequence annotation: BBa_K802007
sequence: https://synbiohub.org/public/igem/BBa_K802009_sequence/1

BBa_K802007
type: Component
persistent identity: component2198694
display id: component2198694
version: 1
top level: BBa_K802009
access: public
definition: BBa_K802007

BBa_K802006
type: Component
persistent identity: component2198693
display id: component2198693
version: 1
top level: BBa_K802009
access: public
definition: BBa_K802006

BBa_K802008
type: Component
persistent identity: component2198695
display id: component2198695
version: 1
top level: BBa_K802009
access: public
definition: BBa_K802008

BBa_K802008
type: SequenceAnnotation
persistent identity: annotation2198695
display id: annotation2198695
version: 1
top level: BBa_K802009
location: https://synbiohub.org/public/igem/BBa_K802009/annotation2198695/range2198695/1
component: BBa_K802008

https://synbiohub.org/public/igem/BBa_K802009/annotation2198695/range2198695/1
type: Range
persistent identity: range2198695
display id: range2198695
version: 1
direction: direction/reverse
top level: BBa_K802009
start: 1108
end: 2300
orientation: inline

BBa_K802006
type: SequenceAnnotation
persistent identity: annotation2198693
display id: annotation2198693
version: 1
top level: BBa_K802009
location: https://synbiohub.org/public/igem/BBa_K802009/annotation2198693/range2198693/1
component: BBa_K802006

https://synbiohub.org/public/igem/BBa_K802009/annotation2198693/range2198693/1
type: Range
persistent identity: range2198693
display id: range2198693
version: 1
direction: direction/reverse
top level: BBa_K802009
start: 1
end: 787
orientation: inline

BBa_K802007
type: SequenceAnnotation
persistent identity: annotation2198694
display id: annotation2198694
version: 1
top level: BBa_K802009
location: https://synbiohub.org/public/igem/BBa_K802009/annotation2198694/range2198694/1
component: BBa_K802007

https://synbiohub.org/public/igem/BBa_K802009/annotation2198694/range2198694/1
type: Range
persistent identity: range2198694
display id: range2198694
version: 1
direction: direction/reverse
top level: BBa_K802009
start: 796
end: 1099
orientation: inline

BBa_K1228006
type: ComponentDefinition
persistent identity: BBa K1228006
display id: BBa_K1228006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 25aa with T1 terminator and Constitutive promoter veg
creator: Zhang SW
created: 2013-09-08T11:00:00Z
modified: 2015-05-08T01:09:43Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1542_
m user id: 0
owner id: 17767
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Lf (loctoferrin) is located in many key body fluids , e.g., milk, tears, saliva and other secretions, and in white blood cells ,it has become clear that it is an important part of mammalian defence mechanisms, with a wide range of protective functions.25 amino acid residues is from Lf but has a strong bactericidal, bacteriostatic ability, and the antimicrobial activity than natural LF.We add T1 terminator and Constitutive promoter veg on the 25aa to make it can work regularly.
mutable notes: 25aa doesn't contain initiator codon and terminator,so we add a Constitutive promoter veg and T1 terminator .
mutable provenance: 25aa comes from Lf,which was hydrolysed by protease. We synthesis it by Wu Han Bio-broad Co.Ltd
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: Sigma A -10
sequence annotation: BBa_K143021
sequence annotation: SacB Signal tag
sequence annotation: BBa_K143012
sequence annotation: B0010
sequence annotation: rbs
sequence annotation: BBa_K1228004
sequence annotation: BBa_K731722
sequence annotation: Sigma A-35
sequence annotation: BBa_K143053
sequence annotation: BBa_K541501
sequence: https://synbiohub.org/public/igem/BBa_K1228006_sequence/1

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2337060
display id: annotation2337060
version: 1
top level: BBa_K1228006
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337060/range2337060/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337060/range2337060/1
type: Range
persistent identity: range2337060
display id: range2337060
version: 1
direction: direction/forward
top level: BBa_K1228006
start: 86
end: 91
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2337062
display id: annotation2337062
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337062/range2337062/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337062/range2337062/1
type: Range
persistent identity: range2337062
display id: range2337062
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 106
end: 117
orientation: inline

SacB Signal tag
type: SequenceAnnotation
persistent identity: annotation2337063
display id: annotation2337063
version: 1
top level: BBa_K1228006
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337063/range2337063/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337063/range2337063/1
type: Range
persistent identity: range2337063
display id: range2337063
version: 1
direction: direction/forward
top level: BBa_K1228006
start: 124
end: 219
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2337057
display id: annotation2337057
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337057/range2337057/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337057/range2337057/1
type: Range
persistent identity: range2337057
display id: range2337057
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 1
end: 97
orientation: inline

B0010
type: SequenceAnnotation
persistent identity: annotation2337066
display id: annotation2337066
version: 1
top level: BBa_K1228006
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337066/range2337066/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337066/range2337066/1
type: Range
persistent identity: range2337066
display id: range2337066
version: 1
direction: direction/forward
top level: BBa_K1228006
start: 311
end: 389
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2337061
display id: annotation2337061
version: 1
top level: BBa_K1228006
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337061/range2337061/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337061/range2337061/1
type: Range
persistent identity: range2337061
display id: range2337061
version: 1
direction: direction/forward
top level: BBa_K1228006
start: 106
end: 117
orientation: inline

BBa_K1228004
type: SequenceAnnotation
persistent identity: annotation2337065
display id: annotation2337065
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337065/range2337065/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337065/range2337065/1
type: Range
persistent identity: range2337065
display id: range2337065
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 228
end: 302
orientation: inline

BBa_K731722
type: SequenceAnnotation
persistent identity: annotation2337067
display id: annotation2337067
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337067/range2337067/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337067/range2337067/1
type: Range
persistent identity: range2337067
display id: range2337067
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 311
end: 389
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2337059
display id: annotation2337059
version: 1
top level: BBa_K1228006
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337059/range2337059/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337059/range2337059/1
type: Range
persistent identity: range2337059
display id: range2337059
version: 1
direction: direction/forward
top level: BBa_K1228006
start: 63
end: 68
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2337058
display id: annotation2337058
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337058/range2337058/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337058/range2337058/1
type: Range
persistent identity: range2337058
display id: range2337058
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 1
end: 117
orientation: inline

BBa_K541501
type: SequenceAnnotation
persistent identity: annotation2337064
display id: annotation2337064
version: 1
top level: BBa_K1228006
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228006/annotation2337064/range2337064/1

https://synbiohub.org/public/igem/BBa_K1228006/annotation2337064/range2337064/1
type: Range
persistent identity: range2337064
display id: range2337064
version: 1
direction: direction/reverse
top level: BBa_K1228006
start: 1
end: 219
orientation: inline

BBa_J179002
type: ComponentDefinition
persistent identity: BBa J179002
display id: BBa_J179002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pBs4S: Bacillus subtilis vector, thrC integration, spec resistance
creator: Jara Radeck
created: 2013-12-20T12:00:00Z
modified: 2015-08-31T04:08:35Z
discontinued: false
dominant: false
group u list: _865_
m user id: 0
owner id: 6378
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is an empty backbone vector for the usage in Bacillus subtilis. It integrates in the thrC locus and can be selected with Spectinomycin cassette. It has a ampicillin resistance for cloning in E.coli. This backbone is a BioBricked version of the B. subtilis vector pDG1731.
mutable notes: This vector is compatible with pBS1C and pBS2E in one strain.
mutable provenance: This BioBrick is part of the LMU 2012 igem project BacillusBioBrickBox For handling of B. subtilis vectors, please see here. The transformation into B. subtilis is explained here.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: thrC,thrB back
sequence annotation: hom, trC front
sequence annotation: ori
sequence annotation: bla
sequence annotation: spc
sequence: https://synbiohub.org/public/igem/BBa_J179002_sequence/1

thrC,thrB back
type: SequenceAnnotation
persistent identity: annotation2371767
display id: annotation2371767
version: 1
top level: BBa_J179002
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179002/annotation2371767/range2371767/1

https://synbiohub.org/public/igem/BBa_J179002/annotation2371767/range2371767/1
type: Range
persistent identity: range2371767
display id: range2371767
version: 1
direction: direction/forward
top level: BBa_J179002
start: 1028
end: 1863
orientation: inline

hom, trC front
type: SequenceAnnotation
persistent identity: annotation2371770
display id: annotation2371770
version: 1
top level: BBa_J179002
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179002/annotation2371770/range2371770/1

https://synbiohub.org/public/igem/BBa_J179002/annotation2371770/range2371770/1
type: Range
persistent identity: range2371770
display id: range2371770
version: 1
direction: direction/forward
top level: BBa_J179002
start: 3731
end: 4542
orientation: inline

ori
type: SequenceAnnotation
persistent identity: annotation2371768
display id: annotation2371768
version: 1
top level: BBa_J179002
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179002/annotation2371768/range2371768/1

https://synbiohub.org/public/igem/BBa_J179002/annotation2371768/range2371768/1
type: Range
persistent identity: range2371768
display id: range2371768
version: 1
direction: direction/forward
top level: BBa_J179002
start: 1942
end: 2556
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2371769
display id: annotation2371769
version: 1
top level: BBa_J179002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179002/annotation2371769/range2371769/1

https://synbiohub.org/public/igem/BBa_J179002/annotation2371769/range2371769/1
type: Range
persistent identity: range2371769
display id: range2371769
version: 1
direction: direction/reverse
top level: BBa_J179002
start: 2716
end: 3576
orientation: inline

spc
type: SequenceAnnotation
persistent identity: annotation2371766
display id: annotation2371766
version: 1
top level: BBa_J179002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179002/annotation2371766/range2371766/1

https://synbiohub.org/public/igem/BBa_J179002/annotation2371766/range2371766/1
type: Range
persistent identity: range2371766
display id: range2371766
version: 1
direction: direction/forward
top level: BBa_J179002
start: 211
end: 885
orientation: inline

BBa_K1351033
type: ComponentDefinition
persistent identity: BBa K1351033
display id: BBa_K1351033
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LMU Bacillus RBS collection 6
creator: Florian Riemer
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:10:31Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20062
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: "This part was generated in a modified version of RFC25, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGATGGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Stop codons are underlined."
mutable notes: The LMU Bacillus RBS collection is based on a wobble-library with the sequence ARRRRRRGATA and the theoretical translation initiation rates of the RBS in this library, calculated by the salis lab's RBS calculator (https://salis.psu.edu/software/). The 7 RBS submitted as BioBricks are the ones that offer the best coverage of translation initiation rate space, 1 being the optimal Bacillus RBS and 7 being the weakest.
mutable provenance: Synthetic
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K1351033_sequence/1

BBa_K256029
type: ComponentDefinition
persistent identity: BBa K256029
display id: BBa_K256029
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: placI:GFP
creator: iGEM09_NTU-Singapore
created: 2009-10-18T11:00:00Z
modified: 2015-05-08T01:11:41Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _359_
m user id: 0
owner id: 4864
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP generator. Inducible using IPTG/Lactose.
mutable notes: --
mutable provenance: --
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
component: BBa_R0010
component: BBa_B0010
component: BBa_B0012
component: BBa_B0034
component: BBa_E0040
sequence annotation: BBa_B0012
sequence annotation: BBa_R0010
sequence annotation: BBa_B0010
sequence annotation: BBa_B0034
sequence annotation: BBa_E0040
sequence: https://synbiohub.org/public/igem/BBa_K256029_sequence/1

BBa_R0010
type: Component
persistent identity: component2052776
display id: component2052776
version: 1
top level: BBa_K256029
access: public
definition: https://synbiohub.org/public/igem/BBa_R0010/1

BBa_B0010
type: Component
persistent identity: component2052787
display id: component2052787
version: 1
top level: BBa_K256029
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_B0012
type: Component
persistent identity: component2052789
display id: component2052789
version: 1
top level: BBa_K256029
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0034
type: Component
persistent identity: component2052784
display id: component2052784
version: 1
top level: BBa_K256029
access: public
definition: https://synbiohub.org/public/igem/BBa_B0034/1

BBa_E0040
type: Component
persistent identity: component2052786
display id: component2052786
version: 1
top level: BBa_K256029
access: public
definition: GFP

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation2052789
display id: annotation2052789
version: 1
top level: BBa_K256029
location: https://synbiohub.org/public/igem/BBa_K256029/annotation2052789/range2052789/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K256029/annotation2052789/range2052789/1
type: Range
persistent identity: range2052789
display id: range2052789
version: 1
direction: direction/forward
top level: BBa_K256029
start: 1043
end: 1083
orientation: inline

BBa_R0010
type: SequenceAnnotation
persistent identity: annotation2052776
display id: annotation2052776
version: 1
top level: BBa_K256029
location: https://synbiohub.org/public/igem/BBa_K256029/annotation2052776/range2052776/1
component: BBa_R0010

https://synbiohub.org/public/igem/BBa_K256029/annotation2052776/range2052776/1
type: Range
persistent identity: range2052776
display id: range2052776
version: 1
direction: direction/forward
top level: BBa_K256029
start: 1
end: 200
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation2052787
display id: annotation2052787
version: 1
top level: BBa_K256029
location: https://synbiohub.org/public/igem/BBa_K256029/annotation2052787/range2052787/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K256029/annotation2052787/range2052787/1
type: Range
persistent identity: range2052787
display id: range2052787
version: 1
direction: direction/forward
top level: BBa_K256029
start: 955
end: 1034
orientation: inline

BBa_B0034
type: SequenceAnnotation
persistent identity: annotation2052784
display id: annotation2052784
version: 1
top level: BBa_K256029
location: https://synbiohub.org/public/igem/BBa_K256029/annotation2052784/range2052784/1
component: BBa_B0034

https://synbiohub.org/public/igem/BBa_K256029/annotation2052784/range2052784/1
type: Range
persistent identity: range2052784
display id: range2052784
version: 1
direction: direction/reverse
top level: BBa_K256029
start: 209
end: 220
orientation: inline

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation2052786
display id: annotation2052786
version: 1
top level: BBa_K256029
location: https://synbiohub.org/public/igem/BBa_K256029/annotation2052786/range2052786/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_K256029/annotation2052786/range2052786/1
type: Range
persistent identity: range2052786
display id: range2052786
version: 1
direction: direction/reverse
top level: BBa_K256029
start: 227
end: 946
orientation: inline

BBa_K143072
type: ComponentDefinition
persistent identity: BBa K143072
display id: BBa_K143072
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (P43-spoVG) (with CmR)
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to a chloramphenicol resistance generator in closed transcriptional unit (Parts BBa_K143051 and BBa_K143064 ) and the PoPS generator P43-spoVG ( BBa_K143051 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The chloramphenicol adenyltransferase give resistance to chloramphenicol while the terminator prevents readthrough. The P43-spoVG promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of P43-spoVG was obtained from papers. Chloramphenicol adenyltransferase and the double terminator were obtained from the registry.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the P43-spoVG that was synthesised by GeneArt and Chloramphenicol adenyltransferase and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143021
component: BBa_J31005
component: BBa_K143001
component: BBa_K143013
component: BBa_B0010
component: BBa_B0012
sequence annotation: BBa_K143001
sequence annotation: BBa_K143013
sequence annotation: BBa_K143021
sequence annotation: BBa_J31005
sequence annotation: BBa_B0012
sequence annotation: BBa_B0010
sequence: https://synbiohub.org/public/igem/BBa_K143072_sequence/1

BBa_K143021
type: Component
persistent identity: component1991859
display id: component1991859
version: 1
top level: BBa_K143072
access: public
definition: RBS-spoVG

BBa_J31005
type: Component
persistent identity: component1991861
display id: component1991861
version: 1
top level: BBa_K143072
access: public
definition: https://synbiohub.org/public/igem/BBa_J31005/1

BBa_K143001
type: Component
persistent identity: component1991852
display id: component1991852
version: 1
top level: BBa_K143072
access: public
definition: amyE 5 IS

BBa_K143021
type: Component
persistent identity: component1991874
display id: component1991874
version: 1
top level: BBa_K143072
access: public
definition: RBS-spoVG

BBa_K143013
type: Component
persistent identity: component1991872
display id: component1991872
version: 1
top level: BBa_K143072
access: public
definition: P43

BBa_K143013
type: Component
persistent identity: component1991857
display id: component1991857
version: 1
top level: BBa_K143072
access: public
definition: P43

BBa_B0010
type: Component
persistent identity: component1991862
display id: component1991862
version: 1
top level: BBa_K143072
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_B0012
type: Component
persistent identity: component1991864
display id: component1991864
version: 1
top level: BBa_K143072
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1991852
display id: annotation1991852
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991852/range1991852/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143072/annotation1991852/range1991852/1
type: Range
persistent identity: range1991852
display id: range1991852
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 1
end: 522
orientation: inline

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1991857
display id: annotation1991857
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991857/range1991857/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143072/annotation1991857/range1991857/1
type: Range
persistent identity: range1991857
display id: range1991857
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 531
end: 586
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1991859
display id: annotation1991859
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991859/range1991859/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143072/annotation1991859/range1991859/1
type: Range
persistent identity: range1991859
display id: range1991859
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 595
end: 606
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1991874
display id: annotation1991874
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991874/range1991874/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143072/annotation1991874/range1991874/1
type: Range
persistent identity: range1991874
display id: range1991874
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 1482
end: 1493
orientation: inline

BBa_J31005
type: SequenceAnnotation
persistent identity: annotation1991861
display id: annotation1991861
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991861/range1991861/1
component: BBa_J31005

https://synbiohub.org/public/igem/BBa_K143072/annotation1991861/range1991861/1
type: Range
persistent identity: range1991861
display id: range1991861
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 613
end: 1272
orientation: inline

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1991872
display id: annotation1991872
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991872/range1991872/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143072/annotation1991872/range1991872/1
type: Range
persistent identity: range1991872
display id: range1991872
version: 1
direction: direction/reverse
top level: BBa_K143072
start: 1418
end: 1473
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1991864
display id: annotation1991864
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991864/range1991864/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143072/annotation1991864/range1991864/1
type: Range
persistent identity: range1991864
display id: range1991864
version: 1
direction: direction/forward
top level: BBa_K143072
start: 1369
end: 1409
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1991862
display id: annotation1991862
version: 1
top level: BBa_K143072
location: https://synbiohub.org/public/igem/BBa_K143072/annotation1991862/range1991862/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143072/annotation1991862/range1991862/1
type: Range
persistent identity: range1991862
display id: range1991862
version: 1
direction: direction/forward
top level: BBa_K143072
start: 1281
end: 1360
orientation: inline

BBa_K823003
type: ComponentDefinition
persistent identity: BBa K823003
display id: BBa_K823003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg
creator: Korinna Kraft
created: 2012-07-15T11:00:00Z
modified: 2015-05-08T01:13:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12081
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Pveg is a strong, constitutive promoter of Bacillus subtilis
mutable notes: no considerations
mutable provenance: Bacillus subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: promoter
sequence: https://synbiohub.org/public/igem/BBa_K823003_sequence/1

promoter
type: SequenceAnnotation
persistent identity: annotation2190180
display id: annotation2190180
version: 1
top level: BBa_K823003
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823003/annotation2190180/range2190180/1

https://synbiohub.org/public/igem/BBa_K823003/annotation2190180/range2190180/1
type: Range
persistent identity: range2190180
display id: range2190180
version: 1
direction: direction/forward
top level: BBa_K823003
start: 1
end: 237
orientation: inline

epsE 5 IS
type: ComponentDefinition
persistent identity: BBa K143005
display id: BBa_K143005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 5??? Integration Sequence for the epsE locus of B. subtilis
creator: Chris Hirst
created: 2008-09-11T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Integration sequences allow DNA to be incorporated into the chromosome of a host cell at a specific locus using leading (5') and trailing (3') DNA sequences that are the same as those at a specific locus of the chromosome.The 5' integration sequence can be added to the front of a Biobrick construct and the 3' integration sequence specific for this locus (Part BBa_K143006) to the rear of the Biobrick construct to allow integration of the Biobrick construct into the chromosome of the gram positive bacterium B.subtilis. The EpsE (aka YveO) locus has to our knowledge never been used for integration into B.subtilis before, but is useful in that it knocks out the potential molecular clutch EpsE gene [1]. In particular, both the 5' and 3' integration sequences for the EpsE locus conatin in-frame stop codons to prevent translation of the gene (if nothing is integrated into the locus, integration also prevents correct EpsE expression). The 5' and 3' integration sequences for the EpsE locus were used to integrate over the EpsE gene and prevent its expression in the Imperial 2008 iGEM project B.sutbilis host. References 1. Blair KM, Turner L, Winkelman JT, Berg HC, and Kearns DB. A molecular clutch disables flagella in the Bacillus subtilis biofilm. Science 2008 Jun 20; 320(5883) 1636-8. doi:10.1126/science.1157877 pmid:18566286
mutable notes: The EpsE integration sequences were designed from the EpsE (aka YveO) gene's Genbank entry[2] and identification of the sequence directly upstream of the gene on the chromosome (found using NCBI's sequence viewer). The upstream and EpsE gene sequence was analysed for restriction sites and primers (with biobrick prefix and suffix sequences) for two approximately equally sized integration sequences were desgined. The integration sequences were then produced by PCR cloning with Pfu DNA polymerase
mutable provenance: The 5??? integration sequence was taken from the B.subtilis chromosome and is homologous to the chromosme from a few hundred bp upstream of the gene's start codon until 300 bp into the gene. It was produced by PCR cloning with Pfu DNA polymerase
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/DNA
role: SO:0000110
sequence annotation: In frame stop codon
sequence annotation: 5' EpsE Integration Sequence
sequence: https://synbiohub.org/public/igem/BBa_K143005_sequence/1

In frame stop codon
type: SequenceAnnotation
persistent identity: annotation1975719
display id: annotation1975719
version: 1
top level: epsE 5 IS
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143005/annotation1975719/range1975719/1

https://synbiohub.org/public/igem/BBa_K143005/annotation1975719/range1975719/1
type: Range
persistent identity: range1975719
display id: range1975719
version: 1
direction: direction/forward
top level: epsE 5 IS
start: 495
end: 497
orientation: inline

5' EpsE Integration Sequence
type: SequenceAnnotation
persistent identity: annotation1975710
display id: annotation1975710
version: 1
top level: epsE 5 IS
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K143005/annotation1975710/range1975710/1

https://synbiohub.org/public/igem/BBa_K143005/annotation1975710/range1975710/1
type: Range
persistent identity: range1975710
display id: range1975710
version: 1
direction: direction/forward
top level: epsE 5 IS
start: 1
end: 498
orientation: inline

pSac-Cm_BB
type: ComponentDefinition
persistent identity: BBa K818000
display id: BBa_K818000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Integration vector for Bacillus subtilis derived from pSac-Cm
creator: Emeraldo Jo
created: 2012-08-21T11:00:00Z
modified: 2015-05-08T01:13:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1076_
m user id: 0
owner id: 11906
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: The plasmid is designed to integrate a cloned insert into the B. subtilis 168 chromosome at the sacA locus. The user inserts the fragment inside the MCS whi
mutable notes: Biobrick ready
mutable provenance: MolGen Group (University of Groningen)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: bla
sequence annotation: sacA'
sequence annotation: BioBrick suffix
sequence annotation: 'sacA
sequence annotation: BioBrick prefix
sequence annotation: BBa_B0015
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_K818000_sequence/1

bla
type: SequenceAnnotation
persistent identity: annotation2203455
display id: annotation2203455
version: 1
top level: pSac-Cm_BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203455/range2203455/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203455/range2203455/1
type: Range
persistent identity: range2203455
display id: range2203455
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 1324
end: 2196
orientation: inline

sacA'
type: SequenceAnnotation
persistent identity: annotation2203456
display id: annotation2203456
version: 1
top level: pSac-Cm_BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203456/range2203456/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203456/range2203456/1
type: Range
persistent identity: range2203456
display id: range2203456
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 3187
end: 3930
orientation: inline

BioBrick suffix
type: SequenceAnnotation
persistent identity: annotation2203452
display id: annotation2203452
version: 1
top level: pSac-Cm_BB
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203452/range2203452/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203452/range2203452/1
type: Range
persistent identity: range2203452
display id: range2203452
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 1
end: 17
orientation: inline

'sacA
type: SequenceAnnotation
persistent identity: annotation2203454
display id: annotation2203454
version: 1
top level: pSac-Cm_BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203454/range2203454/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203454/range2203454/1
type: Range
persistent identity: range2203454
display id: range2203454
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 181
end: 990
orientation: inline

BioBrick prefix
type: SequenceAnnotation
persistent identity: annotation2203458
display id: annotation2203458
version: 1
top level: pSac-Cm_BB
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203458/range2203458/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203458/range2203458/1
type: Range
persistent identity: range2203458
display id: range2203458
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 5207
end: 5223
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2203453
display id: annotation2203453
version: 1
top level: pSac-Cm_BB
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203453/range2203453/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203453/range2203453/1
type: Range
persistent identity: range2203453
display id: range2203453
version: 1
direction: direction/forward
top level: pSac-Cm_BB
start: 18
end: 170
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2203457
display id: annotation2203457
version: 1
top level: pSac-Cm_BB
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K818000/annotation2203457/range2203457/1

https://synbiohub.org/public/igem/BBa_K818000/annotation2203457/range2203457/1
type: Range
persistent identity: range2203457
display id: range2203457
version: 1
direction: direction/reverse
top level: pSac-Cm_BB
start: 4249
end: 4911
orientation: inline

BBa_K259006
type: ComponentDefinition
persistent identity: BBa K259006
display id: BBa_K259006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP-Terminator
creator: Petros Mina
created: 2009-09-08T11:00:00Z
modified: 2015-05-08T01:11:42Z
discontinued: false
dominant: false
group u list: _357_
m user id: 0
owner id: 5318
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: ==Part Description== This is a composite part made from Green Fluorescent Protein (GFP) and a double terminator. Green Fluorescent protein (originally from part [http://partsregistry.org/Part:BBa_E0040 BBa_E0040]) that will glow green when excited by the correct wavelengths and thus can be used as a reporter gene. This part is directly fused to a terminator (originally from part [http://partsregistry.org/Part:BBa_B0014 BBa_B0014]) so it is ideal to be fused at the end of your construct. ==Table of Statistics== {| style="color:white; background-color:#0066CC;" cellpadding="20" cellspacing="0" border="2" !Chassis !Monomer/Multimer !Aminoacid Length/Weight !Localisation !Structure !Excitation wavelengths !Emmision wavelengths |- |Prokaryotic and Eukaryotic |Bipartite |274 aminoacids | |beta-barrel(for GFP) hairpins for Terminator |501nm |511nm |} ==References== #Valdivia pmid=8707053
mutable notes: No additional design considerations. The parts were fused together following RFC10 assembly.
mutable provenance: GFP originates from jellyfish Aequeora victoria. For more details visit the [http://www.expasy.ch/uniprot/P42212 SwissProt entry]. The double terminator was designed by Reshma Shetty. For more details visis the [http://partsregistry.org/Part:BBa_B0014 original part page].
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
component: BBa_B0012
component: BBa_B0011
component: BBa_E0040
sequence annotation: BBa_E0040
sequence annotation: BBa_B0011
sequence annotation: BBa_B0012
sequence: https://synbiohub.org/public/igem/BBa_K259006_sequence/1

BBa_B0012
type: Component
persistent identity: component2020530
display id: component2020530
version: 1
top level: BBa_K259006
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_B0011
type: Component
persistent identity: component2020534
display id: component2020534
version: 1
top level: BBa_K259006
access: public
definition: https://synbiohub.org/public/igem/BBa_B0011/1

BBa_E0040
type: Component
persistent identity: component2020529
display id: component2020529
version: 1
top level: BBa_K259006
access: public
definition: GFP

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation2020529
display id: annotation2020529
version: 1
top level: BBa_K259006
location: https://synbiohub.org/public/igem/BBa_K259006/annotation2020529/range2020529/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_K259006/annotation2020529/range2020529/1
type: Range
persistent identity: range2020529
display id: range2020529
version: 1
direction: direction/reverse
top level: BBa_K259006
start: 1
end: 720
orientation: inline

BBa_B0011
type: SequenceAnnotation
persistent identity: annotation2020534
display id: annotation2020534
version: 1
top level: BBa_K259006
location: https://synbiohub.org/public/igem/BBa_K259006/annotation2020534/range2020534/1
component: BBa_B0011

https://synbiohub.org/public/igem/BBa_K259006/annotation2020534/range2020534/1
type: Range
persistent identity: range2020534
display id: range2020534
version: 1
direction: direction/forward
top level: BBa_K259006
start: 778
end: 823
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation2020530
display id: annotation2020530
version: 1
top level: BBa_K259006
location: https://synbiohub.org/public/igem/BBa_K259006/annotation2020530/range2020530/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K259006/annotation2020530/range2020530/1
type: Range
persistent identity: range2020530
display id: range2020530
version: 1
direction: direction/forward
top level: BBa_K259006
start: 729
end: 769
orientation: inline

Pctc
type: ComponentDefinition
persistent identity: BBa K143010
display id: BBa_K143010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter ctc for B. subtilis
creator: James Chappell
created: 2008-09-10T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Promoter ctc is a sigma factor B dependent promoter found in ''B.subtilis''. In ''B.subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter ctc has been used previously as a read out for the activation of sigma factor B 2. *The context with which we used the promoter ctc, was to take blue light as an input and give '''Polymerase Per Second'''(PoPS) as an output. To do this the other potential inputs need to be carefully controlled so that only blue light activated the sigma B and gives a PoPS output. In order to get sufficient sigma B activation by blue light the light receptor YtvA, part...., needs to be over expressed in ''B.subtilis'' 3. ===Reference=== #1 pmid=16267279 #2 pmid=3100810 #3 pmid=17575448
mutable notes: Biobrick standard was applied to the promoter ctc sequence.
mutable provenance: The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers 23. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Sigma B -35
sequence annotation: Sigma B -10
sequence: https://synbiohub.org/public/igem/BBa_K143010_sequence/1

Sigma B -35
type: SequenceAnnotation
persistent identity: annotation1975701
display id: annotation1975701
version: 1
top level: Pctc
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143010/annotation1975701/range1975701/1

https://synbiohub.org/public/igem/BBa_K143010/annotation1975701/range1975701/1
type: Range
persistent identity: range1975701
display id: range1975701
version: 1
direction: direction/forward
top level: Pctc
start: 21
end: 28
orientation: inline

Sigma B -10
type: SequenceAnnotation
persistent identity: annotation1975700
display id: annotation1975700
version: 1
top level: Pctc
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143010/annotation1975700/range1975700/1

https://synbiohub.org/public/igem/BBa_K143010/annotation1975700/range1975700/1
type: Range
persistent identity: range1975700
display id: range1975700
version: 1
direction: direction/forward
top level: Pctc
start: 41
end: 46
orientation: inline

BBa_K1228007
type: ComponentDefinition
persistent identity: BBa K1228007
display id: BBa_K1228007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 38aa with Constitutive promoter veg
creator: Zhang SW
created: 2013-09-08T11:00:00Z
modified: 2015-05-08T01:09:43Z
discontinued: false
dominant: false
group u list: _1542_
m user id: 0
owner id: 17767
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Human lysozyme (hLZ), the actual protein in breast milk,exhibits microbicidal activity to various degrees against several bacterial strains.The HLH peptide and its N-terminal helix (H1) were significantly the most potent bactericidal to Gram-positive and Gram-negative bacteria.Evidence shows that HLH peptide and its N-terminal helix (H1) kill bacteria by crossing the outer membrane of Gram-negative bacteria via self-promoted uptake and are able to dissipate the membrane potential-dependent respiration of Gram-positive bacteria
mutable notes: 38aa doesn't contain any promoter or terminator.
mutable provenance: 38aa comes from Human lysozyme.It was synthesized in Wuhan Bio-Broad Co.Ltd
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: BBa_K143053
sequence annotation: BBa_K143012
sequence annotation: SacB Signal tag
sequence annotation: BBa_K1228000
sequence annotation: BBa_K541501
sequence annotation: rbs
sequence annotation: Sigma A-35
sequence annotation: Sigma A -10
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K1228007_sequence/1

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2337072
display id: annotation2337072
version: 1
top level: BBa_K1228007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337072/range2337072/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337072/range2337072/1
type: Range
persistent identity: range2337072
display id: range2337072
version: 1
direction: direction/reverse
top level: BBa_K1228007
start: 1
end: 117
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2337071
display id: annotation2337071
version: 1
top level: BBa_K1228007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337071/range2337071/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337071/range2337071/1
type: Range
persistent identity: range2337071
display id: range2337071
version: 1
direction: direction/reverse
top level: BBa_K1228007
start: 1
end: 97
orientation: inline

SacB Signal tag
type: SequenceAnnotation
persistent identity: annotation2337077
display id: annotation2337077
version: 1
top level: BBa_K1228007
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337077/range2337077/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337077/range2337077/1
type: Range
persistent identity: range2337077
display id: range2337077
version: 1
direction: direction/forward
top level: BBa_K1228007
start: 124
end: 219
orientation: inline

BBa_K1228000
type: SequenceAnnotation
persistent identity: annotation2337079
display id: annotation2337079
version: 1
top level: BBa_K1228007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337079/range2337079/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337079/range2337079/1
type: Range
persistent identity: range2337079
display id: range2337079
version: 1
direction: direction/reverse
top level: BBa_K1228007
start: 228
end: 341
orientation: inline

BBa_K541501
type: SequenceAnnotation
persistent identity: annotation2337078
display id: annotation2337078
version: 1
top level: BBa_K1228007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337078/range2337078/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337078/range2337078/1
type: Range
persistent identity: range2337078
display id: range2337078
version: 1
direction: direction/reverse
top level: BBa_K1228007
start: 1
end: 219
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2337075
display id: annotation2337075
version: 1
top level: BBa_K1228007
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337075/range2337075/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337075/range2337075/1
type: Range
persistent identity: range2337075
display id: range2337075
version: 1
direction: direction/forward
top level: BBa_K1228007
start: 106
end: 117
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2337073
display id: annotation2337073
version: 1
top level: BBa_K1228007
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337073/range2337073/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337073/range2337073/1
type: Range
persistent identity: range2337073
display id: range2337073
version: 1
direction: direction/forward
top level: BBa_K1228007
start: 63
end: 68
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2337074
display id: annotation2337074
version: 1
top level: BBa_K1228007
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337074/range2337074/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337074/range2337074/1
type: Range
persistent identity: range2337074
display id: range2337074
version: 1
direction: direction/forward
top level: BBa_K1228007
start: 86
end: 91
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2337076
display id: annotation2337076
version: 1
top level: BBa_K1228007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228007/annotation2337076/range2337076/1

https://synbiohub.org/public/igem/BBa_K1228007/annotation2337076/range2337076/1
type: Range
persistent identity: range2337076
display id: range2337076
version: 1
direction: direction/reverse
top level: BBa_K1228007
start: 106
end: 117
orientation: inline

BBa_K104006
type: ComponentDefinition
persistent identity: BBa K104006
display id: BBa_K104006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaK CDS (Coding Sequence)
creator: Anil Wipat
created: 2009-10-13T11:00:00Z
modified: 2015-06-09T08:50:26Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is the coding sequence for the spaK gene from Bacillus subtilis ATCC6633. SpaK is the sensor kinase for the subtilin-responsive two component system encoded by the the spaRK operon. SpaK is phosphorylated in response to the presence of subtilin.
mutable notes: This promoter forms part of the complex device BBa_K104001
mutable provenance: The part comes from the sequence of the spaRK operon from Genbank entry: Bacillus subtilis spaR and spaK genes, complete coding regions, gi|143569|gb|L07785.1|BACSPARK[143569]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spaK CDS
sequence: https://synbiohub.org/public/igem/BBa_K104006_sequence/1

spaK CDS
type: SequenceAnnotation
persistent identity: annotation2040661
display id: annotation2040661
version: 1
top level: BBa_K104006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K104006/annotation2040661/range2040661/1

https://synbiohub.org/public/igem/BBa_K104006/annotation2040661/range2040661/1
type: Range
persistent identity: range2040661
display id: range2040661
version: 1
direction: direction/forward
top level: BBa_K104006
start: 1
end: 1182
orientation: inline

BBa_K1351006
type: ComponentDefinition
persistent identity: BBa K1351006
display id: BBa_K1351006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: CWB domain of B. subtilis major autolysin LytC
creator: Mona Dotzler
created: 2014-10-03T11:00:00Z
modified: 2015-06-01T12:54:45Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Cell wall binding domain and signal peptide (amino acids 1 to 333) of ''Bacillus subtilis'' major autolysin LytC (Uniprot [http://www.uniprot.org/uniprot/Q02114 Q02114]). This domain has been used for displaying heterologous proteins on the cell surface of ''B. subtilis'' (Tsuchiya ''et. al.'', 1999). Used in the [http://2014.igem.org/Team:LMU-Munich/Project/Bakillus BaKillus project] to display pathogen-specific peptides by C-terminal fusions to mediate adhesion of ''B. subtlis'' to pathogens.
mutable notes: Due to the N-terminal signal peptide, this part allows only C-terminal fusions of proteins to be displayed on the cell surface. The CWB domain of LytC consists of three N‐terminal type II cell wall‐binding motifs, ranging from position 30 to 318. To minimize possible effects of a translational fusion to the CWB domain, the part includes the downstream unstructered region until position 333. An additional linker can be inserted to allow more structural flexibilty.
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. LytC_ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC TTGCGTTCTTATATAAAAGTCCTAACAATGTG LytC_333_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT TGAATCTTGATCACCGTGACCC
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: CWB repeat
sequence annotation: signal peptide
sequence: https://synbiohub.org/public/igem/BBa_K1351006_sequence/1

CWB repeat
type: SequenceAnnotation
persistent identity: annotation2393767
display id: annotation2393767
version: 1
top level: BBa_K1351006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351006/annotation2393767/range2393767/1

https://synbiohub.org/public/igem/BBa_K1351006/annotation2393767/range2393767/1
type: Range
persistent identity: range2393767
display id: range2393767
version: 1
direction: direction/forward
top level: BBa_K1351006
start: 90
end: 386
orientation: inline

signal peptide
type: SequenceAnnotation
persistent identity: annotation2393766
display id: annotation2393766
version: 1
top level: BBa_K1351006
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1351006/annotation2393766/range2393766/1

https://synbiohub.org/public/igem/BBa_K1351006/annotation2393766/range2393766/1
type: Range
persistent identity: range2393766
display id: range2393766
version: 1
direction: direction/forward
top level: BBa_K1351006
start: 1
end: 75
orientation: inline

CWB repeat
type: SequenceAnnotation
persistent identity: annotation2393768
display id: annotation2393768
version: 1
top level: BBa_K1351006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351006/annotation2393768/range2393768/1

https://synbiohub.org/public/igem/BBa_K1351006/annotation2393768/range2393768/1
type: Range
persistent identity: range2393768
display id: range2393768
version: 1
direction: direction/forward
top level: BBa_K1351006
start: 387
end: 668
orientation: inline

CWB repeat
type: SequenceAnnotation
persistent identity: annotation2393769
display id: annotation2393769
version: 1
top level: BBa_K1351006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1351006/annotation2393769/range2393769/1

https://synbiohub.org/public/igem/BBa_K1351006/annotation2393769/range2393769/1
type: Range
persistent identity: range2393769
display id: range2393769
version: 1
direction: direction/forward
top level: BBa_K1351006
start: 669
end: 956
orientation: inline

BBa_K1364004
type: ComponentDefinition
persistent identity: BBa K1364004
display id: BBa_K1364004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg + N-acetylatedglucosamine based chemotaxis for Bacillus subtilis
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T09:17:20Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K823003
component: BBa_K1364000
sequence annotation: BBa_K1364000
sequence annotation: BBa_K823003
sequence: https://synbiohub.org/public/igem/BBa_K1364004_sequence/1

BBa_K823003
type: Component
persistent identity: component2392970
display id: component2392970
version: 1
top level: BBa_K1364004
access: public
definition: BBa_K823003

BBa_K1364000
type: Component
persistent identity: component2392971
display id: component2392971
version: 1
top level: BBa_K1364004
access: public
definition: BBa_K1364000

BBa_K1364000
type: SequenceAnnotation
persistent identity: annotation2392971
display id: annotation2392971
version: 1
top level: BBa_K1364004
location: https://synbiohub.org/public/igem/BBa_K1364004/annotation2392971/range2392971/1
component: BBa_K1364000

https://synbiohub.org/public/igem/BBa_K1364004/annotation2392971/range2392971/1
type: Range
persistent identity: range2392971
display id: range2392971
version: 1
direction: direction/reverse
top level: BBa_K1364004
start: 246
end: 2484
orientation: inline

BBa_K823003
type: SequenceAnnotation
persistent identity: annotation2392970
display id: annotation2392970
version: 1
top level: BBa_K1364004
location: https://synbiohub.org/public/igem/BBa_K1364004/annotation2392970/range2392970/1
component: BBa_K823003

https://synbiohub.org/public/igem/BBa_K1364004/annotation2392970/range2392970/1
type: Range
persistent identity: range2392970
display id: range2392970
version: 1
direction: direction/reverse
top level: BBa_K1364004
start: 1
end: 237
orientation: inline

PgsiB
type: ComponentDefinition
persistent identity: BBa K143011
display id: BBa_K143011
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter gsiB for B. subtilis
creator: James Chappell
created: 2008-09-10T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Promoter gsiB is a sigma factor B dependent promoter found in ''B.subtilis''. In ''B.subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter gsiB has been used previously as a read out for the activation of sigma factor B 2. The context with which we used the promoter gsiB, was to take blue light as an input and give '''Polymerase Per Second'''(PoPS) as an output. To do this the other potential inputs need to be carefully controlled so that only blue light activated the sigma B and gives a PoPS output. In order to get sufficient sigma B activation by blue light the light receptor YtvA, part...., needs to be over expressed in ''B.subtilis'' 3.
mutable notes: Biobrick standard was applied to the promoter gsiB sequence.
mutable provenance: The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers 23. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Sigma B -10
sequence annotation: Sigma B -35
sequence: https://synbiohub.org/public/igem/BBa_K143011_sequence/1

Sigma B -10
type: SequenceAnnotation
persistent identity: annotation1975703
display id: annotation1975703
version: 1
top level: PgsiB
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143011/annotation1975703/range1975703/1

https://synbiohub.org/public/igem/BBa_K143011/annotation1975703/range1975703/1
type: Range
persistent identity: range1975703
display id: range1975703
version: 1
direction: direction/forward
top level: PgsiB
start: 25
end: 30
orientation: inline

Sigma B -35
type: SequenceAnnotation
persistent identity: annotation1975702
display id: annotation1975702
version: 1
top level: PgsiB
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143011/annotation1975702/range1975702/1

https://synbiohub.org/public/igem/BBa_K143011/annotation1975702/range1975702/1
type: Range
persistent identity: range1975702
display id: range1975702
version: 1
direction: direction/forward
top level: PgsiB
start: 6
end: 11
orientation: inline

BBa_K1399004
type: ComponentDefinition
persistent identity: BBa K1399004
display id: BBa_K1399004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP (mut3b) with LVA-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-06-01T07:07:29Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 4206
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP (mut3b) (see part BBa_E0040) with added LVA-ssrA degradation tag. The tag increases GFP turn-over rate, thus providing better temporal resolution of green fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYALVA and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The LVA tag is reported to lead to fast protein degradation, degrading GFP with rate -0.018 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: ClpXP and ClpAP protease and SspB mediator concentrations, protein stability, Km of binding to the protease, temperature [3]. References [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to GFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (LVA in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: GFP comes from part E1010, the tag sequence was obtained from paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: GFP (mut3b)
sequence annotation: LVA
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399004_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383916
display id: annotation2383916
version: 1
top level: BBa_K1399004
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399004/annotation2383916/range2383916/1

https://synbiohub.org/public/igem/BBa_K1399004/annotation2383916/range2383916/1
type: Range
persistent identity: range2383916
display id: range2383916
version: 1
direction: direction/forward
top level: BBa_K1399004
start: 748
end: 750
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383917
display id: annotation2383917
version: 1
top level: BBa_K1399004
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399004/annotation2383917/range2383917/1

https://synbiohub.org/public/igem/BBa_K1399004/annotation2383917/range2383917/1
type: Range
persistent identity: range2383917
display id: range2383917
version: 1
direction: direction/forward
top level: BBa_K1399004
start: 751
end: 753
orientation: inline

GFP (mut3b)
type: SequenceAnnotation
persistent identity: annotation2383914
display id: annotation2383914
version: 1
top level: BBa_K1399004
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399004/annotation2383914/range2383914/1

https://synbiohub.org/public/igem/BBa_K1399004/annotation2383914/range2383914/1
type: Range
persistent identity: range2383914
display id: range2383914
version: 1
direction: direction/forward
top level: BBa_K1399004
start: 4
end: 714
orientation: inline

LVA
type: SequenceAnnotation
persistent identity: annotation2383915
display id: annotation2383915
version: 1
top level: BBa_K1399004
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399004/annotation2383915/range2383915/1

https://synbiohub.org/public/igem/BBa_K1399004/annotation2383915/range2383915/1
type: Range
persistent identity: range2383915
display id: range2383915
version: 1
direction: direction/forward
top level: BBa_K1399004
start: 715
end: 747
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383913
display id: annotation2383913
version: 1
top level: BBa_K1399004
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399004/annotation2383913/range2383913/1

https://synbiohub.org/public/igem/BBa_K1399004/annotation2383913/range2383913/1
type: Range
persistent identity: range2383913
display id: range2383913
version: 1
direction: direction/forward
top level: BBa_K1399004
start: 1
end: 3
orientation: inline

BBa_K1085004
type: ComponentDefinition
persistent identity: BBa K1085004
display id: BBa_K1085004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon SpiderSilkSubunitN1 Strep-tag
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2015-06-02T12:19:48Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitN1) with a Bacillus Subtilis ribosome binding site (RBS) and the Strep-tag infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. The Strep-tag, fused at the N terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin. SubunitN1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: starting codon (ATG)
sequence annotation: RBS
sequence annotation: spidersilk subunit N1
sequence annotation: strep
sequence: https://synbiohub.org/public/igem/BBa_K1085004_sequence/1

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2339048
display id: annotation2339048
version: 1
top level: BBa_K1085004
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085004/annotation2339048/range2339048/1

https://synbiohub.org/public/igem/BBa_K1085004/annotation2339048/range2339048/1
type: Range
persistent identity: range2339048
display id: range2339048
version: 1
direction: direction/forward
top level: BBa_K1085004
start: 14
end: 16
orientation: inline

RBS
type: SequenceAnnotation
persistent identity: annotation2339047
display id: annotation2339047
version: 1
top level: BBa_K1085004
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1085004/annotation2339047/range2339047/1

https://synbiohub.org/public/igem/BBa_K1085004/annotation2339047/range2339047/1
type: Range
persistent identity: range2339047
display id: range2339047
version: 1
direction: direction/forward
top level: BBa_K1085004
start: 1
end: 6
orientation: inline

spidersilk subunit N1
type: SequenceAnnotation
persistent identity: annotation2339051
display id: annotation2339051
version: 1
top level: BBa_K1085004
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085004/annotation2339051/range2339051/1

https://synbiohub.org/public/igem/BBa_K1085004/annotation2339051/range2339051/1
type: Range
persistent identity: range2339051
display id: range2339051
version: 1
direction: direction/forward
top level: BBa_K1085004
start: 59
end: 199
orientation: inline

strep
type: SequenceAnnotation
persistent identity: annotation2339049
display id: annotation2339049
version: 1
top level: BBa_K1085004
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085004/annotation2339049/range2339049/1

https://synbiohub.org/public/igem/BBa_K1085004/annotation2339049/range2339049/1
type: Range
persistent identity: range2339049
display id: range2339049
version: 1
direction: direction/forward
top level: BBa_K1085004
start: 17
end: 40
orientation: inline

BBa_K541526
type: ComponentDefinition
persistent identity: BBa K541526
display id: BBa_K541526
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: reflectin for b.subtilis with LipA signal peptide
creator: Fazilet Guler
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 8463
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: Constitutive promoter veg(BBa_K143012) coupled to the strong Ribosome Binding Site spoVG(BBa_K143021) from B. subtilis. These parts have been taken from 2008_Imperial_Collage. Pveg is a constitutive promoter that constitutively expresses the P43 protein in B. subtilis. SpoVG is an endogenous ribosome binding site from B. subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B. subtilis. LipA is a signal peptide from the B. subtilis genome. In general, signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached)through an appropriate secretory pathway[3]. LipA has been successfully used in the secretion of heterologous proteins such as cutinase by B. subtilis. Reflectin is a self-assembling protein that has the ability to reflect the sun light which depends on the thickness of the protein layer. Therefore, we thought that this ability could be used as a novel reporter for B.subtilis and E.coli.
mutable notes: optimized for b.subtilis
mutable provenance: cephalopod and b.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
sequence: https://synbiohub.org/public/igem/BBa_K541526_sequence/1

Ph-s
type: ComponentDefinition
persistent identity: BBa K143015
display id: BBa_K143015
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter hyper-spank for B. subtilis
creator: Chris Hirst
created: 2008-09-17T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Promoter hyper-spank is an inducible promoter that has been designed for high expression in ''B.subtilis''. Gene expression under the promoter hyper-spank can be induced by addition of Isopropyl β-D-1-thiogalactopyranoside (IPTG). The context with which we used the promoter hyper-spank, was to take an input of IPTG and give '''Polymerase Per Second'''(PoPS) as an output. IPTG does not induce the promoter hyper-spank directly, but requires the transcriptional regulator '''LacI''', ( BBa_K413035 ). This means that LacI must be constitutively expressed in ''B.subtilis'' in order to use the promoter hyper-spank.
mutable notes: Biobrick standard was applied to the promoter hyper-spank sequence.
mutable provenance: The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers 123. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: LacI Operator
sequence annotation: Sigma A -10
sequence annotation: Sigma A -35
sequence: https://synbiohub.org/public/igem/BBa_K143015_sequence/1

LacI Operator
type: SequenceAnnotation
persistent identity: annotation1976426
display id: annotation1976426
version: 1
top level: Ph-s
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K143015/annotation1976426/range1976426/1

https://synbiohub.org/public/igem/BBa_K143015/annotation1976426/range1976426/1
type: Range
persistent identity: range1976426
display id: range1976426
version: 1
direction: direction/forward
top level: Ph-s
start: 81
end: 101
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation1976425
display id: annotation1976425
version: 1
top level: Ph-s
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143015/annotation1976425/range1976425/1

https://synbiohub.org/public/igem/BBa_K143015/annotation1976425/range1976425/1
type: Range
persistent identity: range1976425
display id: range1976425
version: 1
direction: direction/forward
top level: Ph-s
start: 69
end: 74
orientation: inline

LacI Operator
type: SequenceAnnotation
persistent identity: annotation1976423
display id: annotation1976423
version: 1
top level: Ph-s
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K143015/annotation1976423/range1976423/1

https://synbiohub.org/public/igem/BBa_K143015/annotation1976423/range1976423/1
type: Range
persistent identity: range1976423
display id: range1976423
version: 1
direction: direction/forward
top level: Ph-s
start: 10
end: 30
orientation: inline

Sigma A -35
type: SequenceAnnotation
persistent identity: annotation1976424
display id: annotation1976424
version: 1
top level: Ph-s
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143015/annotation1976424/range1976424/1

https://synbiohub.org/public/igem/BBa_K143015/annotation1976424/range1976424/1
type: Range
persistent identity: range1976424
display id: range1976424
version: 1
direction: direction/forward
top level: Ph-s
start: 46
end: 50
orientation: inline

BBa_K1197002
type: ComponentDefinition
persistent identity: BBa K1197002
display id: BBa_K1197002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pHyperspank + Anti MazF
creator: Alişan Kayab??len
created: 2013-09-19T11:00:00Z
modified: 2015-06-08T11:15:51Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1511_
m user id: 4206
owner id: 12727
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Anti MazF is an antisense RNA producing sequence which is complemantary to MazF (K302033). MazF is a non-specific ribonuclease coding element which kills Bacillus subtilis. Anti MazF element produces an mRNA which is reverse complemantary to mRNA produced by MazF. Thus, Anti Mazf mRNA binds to MazF mRNA and inhibit its activity for coding MazF protein. With pHyperspank promoter, the production of Anti MazF will be depend on IPTG presence in the medium. If there is IPTG in medium, it will inactivate LacI which inhibit pHyperspank promoter. Thus, Anti MazF will be produced. On the other hand, if there is no IPTG in medium, LacI will inhibit pHyperspank and Anti MazF mRNA cannot be produced. As a result MazF protein will be produced, and kills the bacteria.
mutable notes: Anti MazF is designed as a complemantary sequence to the last 4 bases of the RBS sequence, 6 bases to the intermediate region and to the first 40 bases of MazF coding sequence, tottally 50 bases.
mutable provenance: It is synthesized as a reverse complementary sequence to MazF (K302033)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K606040
component: BBa_K1197000
sequence annotation: BBa_K606040
sequence annotation: BBa_K1197000
sequence: https://synbiohub.org/public/igem/BBa_K1197002_sequence/1

BBa_K606040
type: Component
persistent identity: component2357084
display id: component2357084
version: 1
top level: BBa_K1197002
access: public
definition: https://synbiohub.org/public/igem/BBa_K606040/1

BBa_K1197000
type: Component
persistent identity: component2357085
display id: component2357085
version: 1
top level: BBa_K1197002
access: public
definition: BBa_K1197000

BBa_K606040
type: SequenceAnnotation
persistent identity: annotation2357084
display id: annotation2357084
version: 1
top level: BBa_K1197002
location: https://synbiohub.org/public/igem/BBa_K1197002/annotation2357084/range2357084/1
component: BBa_K606040

https://synbiohub.org/public/igem/BBa_K1197002/annotation2357084/range2357084/1
type: Range
persistent identity: range2357084
display id: range2357084
version: 1
direction: direction/reverse
top level: BBa_K1197002
start: 1
end: 92
orientation: inline

BBa_K1197000
type: SequenceAnnotation
persistent identity: annotation2357085
display id: annotation2357085
version: 1
top level: BBa_K1197002
location: https://synbiohub.org/public/igem/BBa_K1197002/annotation2357085/range2357085/1
component: BBa_K1197000

https://synbiohub.org/public/igem/BBa_K1197002/annotation2357085/range2357085/1
type: Range
persistent identity: range2357085
display id: range2357085
version: 1
direction: direction/reverse
top level: BBa_K1197002
start: 101
end: 150
orientation: inline

PcotV
type: ComponentDefinition
persistent identity: BBa K823033
display id: BBa_K823033
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PcotV: B. subtilis promoter regulates spore crust protein cotV
creator: Franziska D??rr
created: 2012-09-05T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12084
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: PcotV: B. subtilis promoter regulates spore crust proteins and is activated in late sporulation. PcotYZ regulates the crust protein cotZ and cotY. We used this promoter to control the fusion proteins for display on B. subtilis spores. We experienced weaker strength as the related promoter PcotYZ [http://2012.igem.org/Team:LMU-Munich/Spore_Coat_Proteins Part:BBa_K823030] see all the details about the LMU-Munich 2012 project here: http://2012.igem.org/Team:LMU-Munich/Spore_Coat_Proteins
mutable notes: We used this part for the regulation of spore crust fusionproteins in B. subtilis
mutable provenance: B. subtilis W168
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: -10
sequence annotation: PcotV
sequence: https://synbiohub.org/public/igem/BBa_K823033_sequence/1

-10
type: SequenceAnnotation
persistent identity: annotation2200620
display id: annotation2200620
version: 1
top level: PcotV
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823033/annotation2200620/range2200620/1

https://synbiohub.org/public/igem/BBa_K823033/annotation2200620/range2200620/1
type: Range
persistent identity: range2200620
display id: range2200620
version: 1
direction: direction/forward
top level: PcotV
start: 109
end: 118
orientation: inline

PcotV
type: SequenceAnnotation
persistent identity: annotation2200610
display id: annotation2200610
version: 1
top level: PcotV
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823033/annotation2200610/range2200610/1

https://synbiohub.org/public/igem/BBa_K823033/annotation2200610/range2200610/1
type: Range
persistent identity: range2200610
display id: range2200610
version: 1
direction: direction/forward
top level: PcotV
start: 1
end: 132
orientation: inline

BBa_K541505
type: ComponentDefinition
persistent identity: BBa K541505
display id: BBa_K541505
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: limulus anti-LPS factor (LALF)
creator: Fazilet Guler
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _708_
m user id: 0
owner id: 8463
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: true
mutable description: Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: optimized for both e.coli and b.subtilis
mutable provenance: horseshoe crab
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: LALF
sequence: https://synbiohub.org/public/igem/BBa_K541505_sequence/1

LALF
type: SequenceAnnotation
persistent identity: annotation2123467
display id: annotation2123467
version: 1
top level: BBa_K541505
role: SO:0000316
role: feature/protein
location: https://synbiohub.org/public/igem/BBa_K541505/annotation2123467/range2123467/1

https://synbiohub.org/public/igem/BBa_K541505/annotation2123467/range2123467/1
type: Range
persistent identity: range2123467
display id: range2123467
version: 1
direction: direction/forward
top level: BBa_K541505
start: 1
end: 312
orientation: inline

BBa_K1085034
type: ComponentDefinition
persistent identity: BBa K1085034
display id: BBa_K1085034
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: MotB Strep-tag SilkSubunitN1
creator: Mirjam Groenewold
created: 2013-09-16T11:00:00Z
modified: 2015-06-08T04:04:18Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Bla
mutable notes: Bla
mutable provenance: Bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: N1
sequence annotation: Strep-tag
sequence annotation: SS-MotB
sequence: https://synbiohub.org/public/igem/BBa_K1085034_sequence/1

N1
type: SequenceAnnotation
persistent identity: annotation2367935
display id: annotation2367935
version: 1
top level: BBa_K1085034
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085034/annotation2367935/range2367935/1

https://synbiohub.org/public/igem/BBa_K1085034/annotation2367935/range2367935/1
type: Range
persistent identity: range2367935
display id: range2367935
version: 1
direction: direction/forward
top level: BBa_K1085034
start: 169
end: 309
orientation: inline

Strep-tag
type: SequenceAnnotation
persistent identity: annotation2367933
display id: annotation2367933
version: 1
top level: BBa_K1085034
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K1085034/annotation2367933/range2367933/1

https://synbiohub.org/public/igem/BBa_K1085034/annotation2367933/range2367933/1
type: Range
persistent identity: range2367933
display id: range2367933
version: 1
direction: direction/forward
top level: BBa_K1085034
start: 124
end: 147
orientation: inline

SS-MotB
type: SequenceAnnotation
persistent identity: annotation2367932
display id: annotation2367932
version: 1
top level: BBa_K1085034
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085034/annotation2367932/range2367932/1

https://synbiohub.org/public/igem/BBa_K1085034/annotation2367932/range2367932/1
type: Range
persistent identity: range2367932
display id: range2367932
version: 1
direction: direction/forward
top level: BBa_K1085034
start: 1
end: 120
orientation: inline

BBa_K302014
type: ComponentDefinition
persistent identity: BBa K302014
display id: BBa_K302014
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: IPTG-inducible arginase
creator: Alan Koh, Steven Woodhouse, Harsh Sheth
created: 2010-08-12T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6009
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: true
mutable description: IPTG-inducible arginase production for ''Bacillus subtilis''.
mutable notes: Two EcoR1 restriction sites were removed from the ''rocF'' coding sequence.
mutable provenance: The ''rocF'' sequence was taken from ''Bacillus subtilis'' 168 genomic DNA, by PCR. Pspac oid,. .... assembled by the Gibson method...
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
component: BBa_K302000
component: BBa_K174004
component: BBa_B0014
sequence annotation: BBa_K174004
sequence annotation: BBa_B0014
sequence annotation: BBa_K302000
sequence: https://synbiohub.org/public/igem/BBa_K302014_sequence/1

BBa_K302000
type: Component
persistent identity: component2220636
display id: component2220636
version: 1
top level: BBa_K302014
access: public
definition: BBa_K302000

BBa_K174004
type: Component
persistent identity: component2220631
display id: component2220631
version: 1
top level: BBa_K302014
access: public
definition: BBa_K174004

BBa_B0014
type: Component
persistent identity: component2220643
display id: component2220643
version: 1
top level: BBa_K302014
access: public
definition: https://synbiohub.org/public/igem/BBa_B0014/1

BBa_K174004
type: SequenceAnnotation
persistent identity: annotation2220631
display id: annotation2220631
version: 1
top level: BBa_K302014
location: https://synbiohub.org/public/igem/BBa_K302014/annotation2220631/range2220631/1
component: BBa_K174004

https://synbiohub.org/public/igem/BBa_K302014/annotation2220631/range2220631/1
type: Range
persistent identity: range2220631
display id: range2220631
version: 1
direction: direction/reverse
top level: BBa_K302014
start: 1
end: 106
orientation: inline

BBa_B0014
type: SequenceAnnotation
persistent identity: annotation2220643
display id: annotation2220643
version: 1
top level: BBa_K302014
location: https://synbiohub.org/public/igem/BBa_K302014/annotation2220643/range2220643/1
component: BBa_B0014

https://synbiohub.org/public/igem/BBa_K302014/annotation2220643/range2220643/1
type: Range
persistent identity: range2220643
display id: range2220643
version: 1
direction: direction/reverse
top level: BBa_K302014
start: 1037
end: 1131
orientation: inline

BBa_K302000
type: SequenceAnnotation
persistent identity: annotation2220636
display id: annotation2220636
version: 1
top level: BBa_K302014
location: https://synbiohub.org/public/igem/BBa_K302014/annotation2220636/range2220636/1
component: BBa_K302000

https://synbiohub.org/public/igem/BBa_K302014/annotation2220636/range2220636/1
type: Range
persistent identity: range2220636
display id: range2220636
version: 1
direction: direction/reverse
top level: BBa_K302014
start: 107
end: 1036
orientation: inline

BBa_K1197008
type: ComponentDefinition
persistent identity: BBa K1197008
display id: BBa_K1197008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pveg (K823003) + RBS (SpoVG) + RFP + DT
creator: Emre İlpars
created: 2013-09-21T11:00:00Z
modified: 2015-06-08T11:17:06Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1511_
m user id: 4206
owner id: 12422
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: .
mutable notes: .
mutable provenance: .
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K823003
component: BBa_K606013
sequence annotation: BBa_K606013
sequence annotation: BBa_K823003
sequence: https://synbiohub.org/public/igem/BBa_K1197008_sequence/1

BBa_K823003
type: Component
persistent identity: component2359764
display id: component2359764
version: 1
top level: BBa_K1197008
access: public
definition: BBa_K823003

BBa_K606013
type: Component
persistent identity: component2359778
display id: component2359778
version: 1
top level: BBa_K1197008
access: public
definition: https://synbiohub.org/public/igem/BBa_K606013/1

BBa_K606013
type: SequenceAnnotation
persistent identity: annotation2359778
display id: annotation2359778
version: 1
top level: BBa_K1197008
location: https://synbiohub.org/public/igem/BBa_K1197008/annotation2359778/range2359778/1
component: BBa_K606013

https://synbiohub.org/public/igem/BBa_K1197008/annotation2359778/range2359778/1
type: Range
persistent identity: range2359778
display id: range2359778
version: 1
direction: direction/reverse
top level: BBa_K1197008
start: 246
end: 1106
orientation: inline

BBa_K823003
type: SequenceAnnotation
persistent identity: annotation2359764
display id: annotation2359764
version: 1
top level: BBa_K1197008
location: https://synbiohub.org/public/igem/BBa_K1197008/annotation2359764/range2359764/1
component: BBa_K823003

https://synbiohub.org/public/igem/BBa_K1197008/annotation2359764/range2359764/1
type: Range
persistent identity: range2359764
display id: range2359764
version: 1
direction: direction/reverse
top level: BBa_K1197008
start: 1
end: 237
orientation: inline

BBa_K1351024
type: ComponentDefinition
persistent identity: BBa K1351024
display id: BBa_K1351024
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PcomC, a CSP inducible promoter derived from Streptococcus pneumoniae
creator: Judith Heckmann
created: 2014-10-05T11:00:00Z
modified: 2015-06-01T08:16:55Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1726_
m user id: 4206
owner id: 20370
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: CSP-depending promoter of Streptococcus pneumoniae. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCCGCGGCCGCTTCTAGATAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: none
mutable provenance: gDNA from Streptococcus pneumoniae R6
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: ComE binding site Right
sequence annotation: ComE binding site Left
sequence: https://synbiohub.org/public/igem/BBa_K1351024_sequence/1

ComE binding site Right
type: SequenceAnnotation
persistent identity: annotation2397926
display id: annotation2397926
version: 1
top level: BBa_K1351024
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351024/annotation2397926/range2397926/1

https://synbiohub.org/public/igem/BBa_K1351024/annotation2397926/range2397926/1
type: Range
persistent identity: range2397926
display id: range2397926
version: 1
direction: direction/forward
top level: BBa_K1351024
start: 79
end: 87
orientation: inline

ComE binding site Left
type: SequenceAnnotation
persistent identity: annotation2397925
display id: annotation2397925
version: 1
top level: BBa_K1351024
role: feature/binding
role: SO:0001091
location: https://synbiohub.org/public/igem/BBa_K1351024/annotation2397925/range2397925/1

https://synbiohub.org/public/igem/BBa_K1351024/annotation2397925/range2397925/1
type: Range
persistent identity: range2397925
display id: range2397925
version: 1
direction: direction/forward
top level: BBa_K1351024
start: 58
end: 66
orientation: inline

cotZ
type: ComponentDefinition
persistent identity: BBa K823032
display id: BBa_K823032
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: cotZ: B. subtilis spore crust protein
creator: Franziska D??rr
created: 2012-09-05T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 12084
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part codes for one of the outer most spore crust proteins in B. subtilis. We designed this part in the Freiburg standard (Assembly 25) to use it as a platform for protein display on B. subtilis spores.
mutable notes: This part is compatible with the freiburg standard (Assembly 25) and can be used for fusion proteins. We used the promoter PcotYZ to regulate transcription.
mutable provenance: B. subtilis W168
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: cotZ
sequence: https://synbiohub.org/public/igem/BBa_K823032_sequence/1

cotZ
type: SequenceAnnotation
persistent identity: annotation2181859
display id: annotation2181859
version: 1
top level: cotZ
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823032/annotation2181859/range2181859/1

https://synbiohub.org/public/igem/BBa_K823032/annotation2181859/range2181859/1
type: Range
persistent identity: range2181859
display id: range2181859
version: 1
direction: direction/forward
top level: cotZ
start: 1
end: 441
orientation: inline

BBa_K174004
type: ComponentDefinition
persistent identity: BBa K174004
display id: BBa_K174004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pspac promoter
creator: The Newcastle 2009 iGEM team
created: 2009-10-09T11:00:00Z
modified: 2015-05-08T01:10:58Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _277_
m user id: 0
owner id: 3942
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This promoter can be induced by IPTG. Wild type LacI binding site is replaced with a perfect palindromic "oid" operator sequence which increases the repression by LacI. This biobrick is an enhancement of Biobrick BBa_K090501 which has the sequence from pmutin2.
mutable notes: pmutin2's genbank accession number is AF072806. Although there is no sequence information for pmutin4, it can be derived from pmutin2's sequence information by changing the O1 lacI binding site with the "oid" sequence.
mutable provenance: This sequence is taken from pmutin4 integration vector. pmutin2's lacI binding site was changed with the "oid" sequence to create pmutin4.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: pspac promoter
sequence annotation: oid - Lac operator
sequence: https://synbiohub.org/public/igem/BBa_K174004_sequence/1

pspac promoter
type: SequenceAnnotation
persistent identity: annotation2033094
display id: annotation2033094
version: 1
top level: BBa_K174004
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K174004/annotation2033094/range2033094/1

https://synbiohub.org/public/igem/BBa_K174004/annotation2033094/range2033094/1
type: Range
persistent identity: range2033094
display id: range2033094
version: 1
direction: direction/forward
top level: BBa_K174004
start: 43
end: 80
orientation: inline

oid - Lac operator
type: SequenceAnnotation
persistent identity: annotation2033093
display id: annotation2033093
version: 1
top level: BBa_K174004
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K174004/annotation2033093/range2033093/1

https://synbiohub.org/public/igem/BBa_K174004/annotation2033093/range2033093/1
type: Range
persistent identity: range2033093
display id: range2033093
version: 1
direction: direction/forward
top level: BBa_K174004
start: 81
end: 100
orientation: inline

BBa_K1351026
type: ComponentDefinition
persistent identity: BBa K1351026
display id: BBa_K1351026
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Signal peptide of B. subtilis major autolysin LytC
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:56:16Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Signal peptide (amino acids 1 to 25) of ''Bacillus subtilis'' major autolysin LytC (N-acetylmuramoyl-L-alanine amidase, Uniprot [http://www.uniprot.org/uniprot/Q02114 Q02114]). Targets proteins for secretion via the Sec pathway (Tjalsma ''et. al.'', 2000).
mutable notes: none
mutable provenance: This part was generated by amplification from BioBrick [http://parts.igem.org/Part:BBa_K1351006 BBa_K1351006] with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. LytC_ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC TTGCGTTCTTATATAAAAGTCCTAACAATGTG LytcSP_SNP_Age_rev: gatcCTGCAGcggccgctACTAGTattaACCGGT ATCGGCCAAAGCTGTTGGC
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351026_sequence/1

pSBBs4S
type: ComponentDefinition
persistent identity: BBa K823022
display id: BBa_K823022
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs4S: Empty backbone for integration into Bacillus subtilis thrC locus
creator: Jara Radeck
created: 2012-08-15T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 6378
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part is an empty backbone vector for the usage in Bacillus subtilis. It integrates in the thrC locus and can be selected with Spectinomycin cassette. It has a ampicillin resistance for cloning in E.coli. It originates from the Bacillus vector pDG1731.
mutable notes: This plasmid can be used as empty backbone vectors like pSB1C3 but is able to integrate in B.subtilis. The clonging site also includes a rfp for selection.
mutable provenance: B.subtilis vector pDG1731
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: bla
sequence annotation: 'thrC
sequence annotation: thrC'
sequence annotation: ori approx.
sequence annotation: thrB
sequence annotation: spc
sequence annotation: hom
sequence: https://synbiohub.org/public/igem/BBa_K823022_sequence/1

bla
type: SequenceAnnotation
persistent identity: annotation2179611
display id: annotation2179611
version: 1
top level: pSBBs4S
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179611/range2179611/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179611/range2179611/1
type: Range
persistent identity: range2179611
display id: range2179611
version: 1
direction: direction/reverse
top level: pSBBs4S
start: 2716
end: 3576
orientation: inline

'thrC
type: SequenceAnnotation
persistent identity: annotation2179608
display id: annotation2179608
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179608/range2179608/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179608/range2179608/1
type: Range
persistent identity: range2179608
display id: range2179608
version: 1
direction: direction/forward
top level: pSBBs4S
start: 1028
end: 1456
orientation: inline

thrC'
type: SequenceAnnotation
persistent identity: annotation2179613
display id: annotation2179613
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179613/range2179613/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179613/range2179613/1
type: Range
persistent identity: range2179613
display id: range2179613
version: 1
direction: direction/forward
top level: pSBBs4S
start: 4033
end: 4542
orientation: inline

ori approx.
type: SequenceAnnotation
persistent identity: annotation2179610
display id: annotation2179610
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179610/range2179610/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179610/range2179610/1
type: Range
persistent identity: range2179610
display id: range2179610
version: 1
direction: direction/forward
top level: pSBBs4S
start: 1942
end: 2556
orientation: inline

thrB
type: SequenceAnnotation
persistent identity: annotation2179609
display id: annotation2179609
version: 1
top level: pSBBs4S
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179609/range2179609/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179609/range2179609/1
type: Range
persistent identity: range2179609
display id: range2179609
version: 1
direction: direction/forward
top level: pSBBs4S
start: 1453
end: 1863
orientation: inline

spc
type: SequenceAnnotation
persistent identity: annotation2179607
display id: annotation2179607
version: 1
top level: pSBBs4S
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179607/range2179607/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179607/range2179607/1
type: Range
persistent identity: range2179607
display id: range2179607
version: 1
direction: direction/forward
top level: pSBBs4S
start: 211
end: 885
orientation: inline

hom
type: SequenceAnnotation
persistent identity: annotation2179612
display id: annotation2179612
version: 1
top level: pSBBs4S
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823022/annotation2179612/range2179612/1

https://synbiohub.org/public/igem/BBa_K823022/annotation2179612/range2179612/1
type: Range
persistent identity: range2179612
display id: range2179612
version: 1
direction: direction/forward
top level: pSBBs4S
start: 3731
end: 4033
orientation: inline

BBa_K1930007
type: ComponentDefinition
persistent identity: BBa K1930007
display id: BBa_K1930007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Ciprofloxacin resistance cassette in integration plasmid (BBa_K823023)
creator: Barbora Waclawikova
created: 2016-10-15T11:00:00Z
modified: 2016-10-17T09:01:57Z
discontinued: true
dominant: false
experience: experience/Works
group u list: _2397_
m user id: 29748
owner id: 29748
owning group id: 9
status: status/Deleted
bookmark: false
mutable description: This part is a ciprofloxacin resistance cassette. It is containing a PAtpI constitutive promoter, ciprofloxacin resistance gene qnrS1 and double terminator. The promoter PAtpI ([http://parts.igem.org/Part:BBa_K1930005 ''BBa_K1930005'']) is a constitutive promoter which has its origin in Bacillus subtilis. It is responsible for the expression of atpA gene (ATP synthesis) during the first 30 minutes of the germination of B. subtilis. atpA gene is part of an operon (atpI-atpB-atpE-atpF-atpH-atpA-atpG-atpD-atpC), therefore the promoter region in front of the first protein coding gene (atpI) in this operon was chosen. Ciprofloxacin resistance gene qnrS1 is found naturally in E. coli, and other Gram-negative strains. qnr genes code for pentapeptide repeat proteins.??These proteins reduce susceptibility to quinolones by protecting the complex of DNA and DNA gyrase enzyme from the inhibitory effect of quinolones. Double terminator ([http://parts.igem.org/Part:BBa_B0015 ''BBa_B0015'']) is the most commonly used terminator. For more information see here: http://parts.igem.org/Part:BBa_B0015.
mutable notes: design
mutable provenance: Ciprofloxacin resistance cassette: Ordered as gBlock. IDT (Integrated DNA technologies). BBa_K823023: Created by iGEM Munich 2012. http://parts.igem.org/Part:BBa_K823023.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
sequence annotation: amyE
sequence annotation: P(AtpI)
sequence annotation: bla
sequence annotation: 2TER
sequence annotation: BBa_B0015
sequence annotation: QnrS1
sequence annotation: BBa_K1930005
sequence annotation: cat
sequence annotation: BBa_K823023
sequence: https://synbiohub.org/public/igem/BBa_K1930007_sequence/1

amyE
type: SequenceAnnotation
persistent identity: annotation2514186
display id: annotation2514186
version: 1
top level: BBa_K1930007
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514186/range2514186/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514186/range2514186/1
type: Range
persistent identity: range2514186
display id: range2514186
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 2494
end: 3522
orientation: inline

P(AtpI)
type: SequenceAnnotation
persistent identity: annotation2514180
display id: annotation2514180
version: 1
top level: BBa_K1930007
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514180/range2514180/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514180/range2514180/1
type: Range
persistent identity: range2514180
display id: range2514180
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1
end: 350
orientation: inline

amyE
type: SequenceAnnotation
persistent identity: annotation2514188
display id: annotation2514188
version: 1
top level: BBa_K1930007
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514188/range2514188/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514188/range2514188/1
type: Range
persistent identity: range2514188
display id: range2514188
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 6661
end: 7181
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2514187
display id: annotation2514187
version: 1
top level: BBa_K1930007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514187/range2514187/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514187/range2514187/1
type: Range
persistent identity: range2514187
display id: range2514187
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 5476
end: 6336
orientation: inline

2TER
type: SequenceAnnotation
persistent identity: annotation2514183
display id: annotation2514183
version: 1
top level: BBa_K1930007
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514183/range2514183/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514183/range2514183/1
type: Range
persistent identity: range2514183
display id: range2514183
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1008
end: 1136
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2514198
display id: annotation2514198
version: 1
top level: BBa_K1930007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514198/range2514198/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514198/range2514198/1
type: Range
persistent identity: range2514198
display id: range2514198
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1008
end: 1136
orientation: inline

QnrS1
type: SequenceAnnotation
persistent identity: annotation2514182
display id: annotation2514182
version: 1
top level: BBa_K1930007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514182/range2514182/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514182/range2514182/1
type: Range
persistent identity: range2514182
display id: range2514182
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 351
end: 1007
orientation: inline

BBa_K1930005
type: SequenceAnnotation
persistent identity: annotation2514181
display id: annotation2514181
version: 1
top level: BBa_K1930007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514181/range2514181/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514181/range2514181/1
type: Range
persistent identity: range2514181
display id: range2514181
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1
end: 350
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2514185
display id: annotation2514185
version: 1
top level: BBa_K1930007
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514185/range2514185/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514185/range2514185/1
type: Range
persistent identity: range2514185
display id: range2514185
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1473
end: 2123
orientation: inline

BBa_K823023
type: SequenceAnnotation
persistent identity: annotation2514184
display id: annotation2514184
version: 1
top level: BBa_K1930007
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1930007/annotation2514184/range2514184/1

https://synbiohub.org/public/igem/BBa_K1930007/annotation2514184/range2514184/1
type: Range
persistent identity: range2514184
display id: range2514184
version: 1
direction: direction/forward
top level: BBa_K1930007
start: 1137
end: 7198
orientation: inline

BBa_K143071
type: ComponentDefinition
persistent identity: BBa K143071
display id: BBa_K143071
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (P43-gsiB) (with CmR)
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to a chloramphenicol resistance generator in closed transcriptional unit (Parts BBa_K143050 and BBa_K143064 ) and the PoPS generator P43-gsiB ( BBa_K143050 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The chloramphenicol adenyltransferase give resistance to chloramphenicol while the terminator prevents readthrough. The P43-gsiB promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of P43-gsiB was obtained from papers. Chloramphenicol adenyltransferase and the double terminator were obtained from the registry.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the P43-gsiB that was synthesised by GeneArt and Chloramphenicol adenyltransferase and the double terminator that were obtained from the registry.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143001
component: BBa_B0012
component: BBa_K143013
component: BBa_K143020
component: BBa_B0010
component: BBa_J31005
sequence annotation: BBa_K143013
sequence annotation: BBa_B0012
sequence annotation: BBa_K143020
sequence annotation: BBa_J31005
sequence annotation: BBa_K143001
sequence annotation: BBa_B0010
sequence: https://synbiohub.org/public/igem/BBa_K143071_sequence/1

BBa_K143001
type: Component
persistent identity: component1991828
display id: component1991828
version: 1
top level: BBa_K143071
access: public
definition: amyE 5 IS

BBa_B0012
type: Component
persistent identity: component1991840
display id: component1991840
version: 1
top level: BBa_K143071
access: public
definition: https://synbiohub.org/public/igem/BBa_B0012/1

BBa_K143013
type: Component
persistent identity: component1991848
display id: component1991848
version: 1
top level: BBa_K143071
access: public
definition: P43

BBa_K143020
type: Component
persistent identity: component1991835
display id: component1991835
version: 1
top level: BBa_K143071
access: public
definition: RBS-GsiB

BBa_B0010
type: Component
persistent identity: component1991838
display id: component1991838
version: 1
top level: BBa_K143071
access: public
definition: https://synbiohub.org/public/igem/BBa_B0010/1

BBa_J31005
type: Component
persistent identity: component1991837
display id: component1991837
version: 1
top level: BBa_K143071
access: public
definition: https://synbiohub.org/public/igem/BBa_J31005/1

BBa_K143013
type: Component
persistent identity: component1991833
display id: component1991833
version: 1
top level: BBa_K143071
access: public
definition: P43

BBa_K143020
type: Component
persistent identity: component1991850
display id: component1991850
version: 1
top level: BBa_K143071
access: public
definition: RBS-GsiB

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1991848
display id: annotation1991848
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991848/range1991848/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143071/annotation1991848/range1991848/1
type: Range
persistent identity: range1991848
display id: range1991848
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 1417
end: 1472
orientation: inline

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1991833
display id: annotation1991833
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991833/range1991833/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143071/annotation1991833/range1991833/1
type: Range
persistent identity: range1991833
display id: range1991833
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 531
end: 586
orientation: inline

BBa_B0012
type: SequenceAnnotation
persistent identity: annotation1991840
display id: annotation1991840
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991840/range1991840/1
component: BBa_B0012

https://synbiohub.org/public/igem/BBa_K143071/annotation1991840/range1991840/1
type: Range
persistent identity: range1991840
display id: range1991840
version: 1
direction: direction/forward
top level: BBa_K143071
start: 1368
end: 1408
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1991850
display id: annotation1991850
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991850/range1991850/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143071/annotation1991850/range1991850/1
type: Range
persistent identity: range1991850
display id: range1991850
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 1481
end: 1491
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1991835
display id: annotation1991835
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991835/range1991835/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143071/annotation1991835/range1991835/1
type: Range
persistent identity: range1991835
display id: range1991835
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 595
end: 605
orientation: inline

BBa_J31005
type: SequenceAnnotation
persistent identity: annotation1991837
display id: annotation1991837
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991837/range1991837/1
component: BBa_J31005

https://synbiohub.org/public/igem/BBa_K143071/annotation1991837/range1991837/1
type: Range
persistent identity: range1991837
display id: range1991837
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 612
end: 1271
orientation: inline

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1991828
display id: annotation1991828
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991828/range1991828/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143071/annotation1991828/range1991828/1
type: Range
persistent identity: range1991828
display id: range1991828
version: 1
direction: direction/reverse
top level: BBa_K143071
start: 1
end: 522
orientation: inline

BBa_B0010
type: SequenceAnnotation
persistent identity: annotation1991838
display id: annotation1991838
version: 1
top level: BBa_K143071
location: https://synbiohub.org/public/igem/BBa_K143071/annotation1991838/range1991838/1
component: BBa_B0010

https://synbiohub.org/public/igem/BBa_K143071/annotation1991838/range1991838/1
type: Range
persistent identity: range1991838
display id: range1991838
version: 1
direction: direction/forward
top level: BBa_K143071
start: 1280
end: 1359
orientation: inline

BBa_K1362461
type: ComponentDefinition
persistent identity: BBa K1362461
display id: BBa_K1362461
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: **highly** engineered mutant of red fluorescent protein from Discosoma striata (coral) with barcode
creator: Constantin Ahlmann-Eltze, Charlotte Bunne, Magdalena Büscher, Jan Gleixner, Max Horn, Anna Huhn, Nils Klughammer, Jakob Kreft, Elisabeth Schäfer, Carolin Schmelas, Silvan Schmitz, Max Waldha
created: 2014-10-07T11:00:00Z
modified: 2016-01-25T01:30:37Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1738_
m user id: 4206
owner id: 22951
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is essentially identical to BBa_E1010 , but has a point mutation in the barcode. Barcodes are discontinued, but composite parts using this part will have the mutated barcode.
mutable provenance: ''Discosoma striata''
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: mrfp1
sequence annotation: mutated barcode
sequence: https://synbiohub.org/public/igem/BBa_K1362461_sequence/1

mrfp1
type: SequenceAnnotation
persistent identity: annotation2404599
display id: annotation2404599
version: 1
top level: BBa_K1362461
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1362461/annotation2404599/range2404599/1

https://synbiohub.org/public/igem/BBa_K1362461/annotation2404599/range2404599/1
type: Range
persistent identity: range2404599
display id: range2404599
version: 1
direction: direction/forward
top level: BBa_K1362461
start: 1
end: 675
orientation: inline

mutated barcode
type: SequenceAnnotation
persistent identity: annotation2404604
display id: annotation2404604
version: 1
top level: BBa_K1362461
role: SO:0000807
role: feature/barcode
location: https://synbiohub.org/public/igem/BBa_K1362461/annotation2404604/range2404604/1

https://synbiohub.org/public/igem/BBa_K1362461/annotation2404604/range2404604/1
type: Range
persistent identity: range2404604
display id: range2404604
version: 1
direction: direction/forward
top level: BBa_K1362461
start: 682
end: 706
orientation: inline

PgsiB-gsiB
type: ComponentDefinition
persistent identity: BBa K143060
display id: BBa_K143060
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter gsiB and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Sigma B dependant promoter gsiB( BBa_K143011 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. In ''B. subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter ctc has been used previously as a read out for the activation of sigma factor B 2. PgsiB has been used to take an input of blue light and give a '''Ribosomes per second'''(RiPS) output. To work as a blue light receiver correctly, over-expression of the blue light receptor '''YtvA''' ( BBa_K143037 ) is required. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter gsiB was obtained from the ''B. subtilis'' genome and published papers1 2. RBS-gsiB were obtained from papers3 and the sequence synthesised by GeneArt
mutable provenance: PgsiB-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143020
component: BBa_K143011
sequence annotation: BBa_K143020
sequence annotation: BBa_K143011
sequence: https://synbiohub.org/public/igem/BBa_K143060_sequence/1

BBa_K143020
type: Component
persistent identity: component1978532
display id: component1978532
version: 1
top level: PgsiB-gsiB
access: public
definition: RBS-GsiB

BBa_K143011
type: Component
persistent identity: component1978530
display id: component1978530
version: 1
top level: PgsiB-gsiB
access: public
definition: PgsiB

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1978532
display id: annotation1978532
version: 1
top level: PgsiB-gsiB
location: https://synbiohub.org/public/igem/BBa_K143060/annotation1978532/range1978532/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143060/annotation1978532/range1978532/1
type: Range
persistent identity: range1978532
display id: range1978532
version: 1
direction: direction/reverse
top level: PgsiB-gsiB
start: 47
end: 57
orientation: inline

BBa_K143011
type: SequenceAnnotation
persistent identity: annotation1978530
display id: annotation1978530
version: 1
top level: PgsiB-gsiB
location: https://synbiohub.org/public/igem/BBa_K143060/annotation1978530/range1978530/1
component: BBa_K143011

https://synbiohub.org/public/igem/BBa_K143060/annotation1978530/range1978530/1
type: Range
persistent identity: range1978530
display id: range1978530
version: 1
direction: direction/reverse
top level: PgsiB-gsiB
start: 1
end: 38
orientation: inline

BBa_K1085018
type: ComponentDefinition
persistent identity: BBa K1085018
display id: BBa_K1085018
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon SpiderSilkSubunitE1 SpiderSilkSubunitE2 SilkTail Strep-tag stop-codon
creator: Claudio Tiecher
created: 2013-09-15T11:00:00Z
modified: 2016-02-10T11:28:19Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16111
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: blablabla
mutable notes: blablabla
mutable provenance: blabla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1085001
component: BBa_K1085002
component: BBa_K1085009
sequence annotation: BBa_K1085002
sequence annotation: BBa_K1085001
sequence annotation: BBa_K1085009
sequence: https://synbiohub.org/public/igem/BBa_K1085018_sequence/1

BBa_K1085001
type: Component
persistent identity: component2349173
display id: component2349173
version: 1
top level: BBa_K1085018
access: public
definition: BBa_K1085001

BBa_K1085002
type: Component
persistent identity: component2349175
display id: component2349175
version: 1
top level: BBa_K1085018
access: public
definition: BBa_K1085002

BBa_K1085009
type: Component
persistent identity: component2349178
display id: component2349178
version: 1
top level: BBa_K1085018
access: public
definition: BBa_K1085009

BBa_K1085002
type: SequenceAnnotation
persistent identity: annotation2349175
display id: annotation2349175
version: 1
top level: BBa_K1085018
location: https://synbiohub.org/public/igem/BBa_K1085018/annotation2349175/range2349175/1
component: BBa_K1085002

https://synbiohub.org/public/igem/BBa_K1085018/annotation2349175/range2349175/1
type: Range
persistent identity: range2349175
display id: range2349175
version: 1
direction: direction/reverse
top level: BBa_K1085018
start: 235
end: 444
orientation: inline

BBa_K1085001
type: SequenceAnnotation
persistent identity: annotation2349173
display id: annotation2349173
version: 1
top level: BBa_K1085018
location: https://synbiohub.org/public/igem/BBa_K1085018/annotation2349173/range2349173/1
component: BBa_K1085001

https://synbiohub.org/public/igem/BBa_K1085018/annotation2349173/range2349173/1
type: Range
persistent identity: range2349173
display id: range2349173
version: 1
direction: direction/reverse
top level: BBa_K1085018
start: 1
end: 226
orientation: inline

BBa_K1085009
type: SequenceAnnotation
persistent identity: annotation2349178
display id: annotation2349178
version: 1
top level: BBa_K1085018
location: https://synbiohub.org/public/igem/BBa_K1085018/annotation2349178/range2349178/1
component: BBa_K1085009

https://synbiohub.org/public/igem/BBa_K1085018/annotation2349178/range2349178/1
type: Range
persistent identity: range2349178
display id: range2349178
version: 1
direction: direction/reverse
top level: BBa_K1085018
start: 453
end: 767
orientation: inline

Fur
type: ComponentDefinition
persistent identity: BBa K1122666
display id: BBa_K1122666
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Ferric uptake repressor
creator: Hugo Villanueva
created: 2013-07-23T11:00:00Z
modified: 2015-07-24T01:14:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1433_
m user id: 4206
owner id: 18022
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: The ferric uptake repressor of Bacillus subtilis called YqkL is a regulator that when in contact with iron will bind and repress a regulatory sequence (the Fur box).
mutable notes: We sequenced the Fur box. This can be added in front of genes to provide regulation when in contact with iron.
mutable provenance: This comes from Bacillus subtilis.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1122666_sequence/1

BBa_K1228009
type: ComponentDefinition
persistent identity: BBa K1228009
display id: BBa_K1228009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: 38aa and 25aa fusion peptide with T1 terminator and Constitutive promoter veg
creator: Zhang SW
created: 2013-09-09T11:00:00Z
modified: 2015-05-08T01:09:43Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1542_
m user id: 0
owner id: 17767
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Human lysozyme (hLZ), the actual protein in breast milk,exhibits microbicidal activity to various degrees against several bacterial strains.The HLH peptide and its N-terminal helix (H1) were significantly the most potent bactericidal to Gram-positive and Gram-negative bacteria.Evidence shows that HLH peptide and its N-terminal helix (H1) kill bacteria by crossing the outer membrane of Gram-negative bacteria via self-promoted uptake and are able to dissipate the membrane potential-dependent respiration of Gram-positive bacteria. Lf (loctoferrin) is located in many key body fluids , e.g., milk, tears, saliva and other secretions, and in white blood cells ,it has become clear that it is an important part of mammalian defence mechanisms, with a wide range of protective functions.25 amino acid residues is from Lf but has a strong bactericidal, bacteriostatic ability, and the antimicrobial activity than natural LF.
mutable notes: Codon optimization has been done,so the protein will be expressed normally in Ecoli.
mutable provenance: 25aa comes from Lf,which was hydrolysed by protease.38aa comes from Human Lysozyme. They were both synthesized in Wuhan Bio-Broad Co.Ltd
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
sequence annotation: BBa_K541501
sequence annotation: SacB Signal tag
sequence annotation: Sigma A -10
sequence annotation: BBa_K1228007
sequence annotation: B0010
sequence annotation: BBa_K1228005
sequence annotation: BBa_K1228000
sequence annotation: rbs
sequence annotation: Sigma A-35
sequence annotation: BBa_K143021
sequence annotation: BBa_K1228004
sequence annotation: BBa_K143012
sequence annotation: BBa_K731722
sequence annotation: BBa_K143053
sequence: https://synbiohub.org/public/igem/BBa_K1228009_sequence/1

BBa_K541501
type: SequenceAnnotation
persistent identity: annotation2337480
display id: annotation2337480
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337480/range2337480/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337480/range2337480/1
type: Range
persistent identity: range2337480
display id: range2337480
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 1
end: 219
orientation: inline

SacB Signal tag
type: SequenceAnnotation
persistent identity: annotation2337485
display id: annotation2337485
version: 1
top level: BBa_K1228009
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337485/range2337485/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337485/range2337485/1
type: Range
persistent identity: range2337485
display id: range2337485
version: 1
direction: direction/forward
top level: BBa_K1228009
start: 124
end: 219
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation2337482
display id: annotation2337482
version: 1
top level: BBa_K1228009
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337482/range2337482/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337482/range2337482/1
type: Range
persistent identity: range2337482
display id: range2337482
version: 1
direction: direction/forward
top level: BBa_K1228009
start: 86
end: 91
orientation: inline

BBa_K1228007
type: SequenceAnnotation
persistent identity: annotation2337487
display id: annotation2337487
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337487/range2337487/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337487/range2337487/1
type: Range
persistent identity: range2337487
display id: range2337487
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 1
end: 341
orientation: inline

B0010
type: SequenceAnnotation
persistent identity: annotation2337489
display id: annotation2337489
version: 1
top level: BBa_K1228009
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337489/range2337489/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337489/range2337489/1
type: Range
persistent identity: range2337489
display id: range2337489
version: 1
direction: direction/forward
top level: BBa_K1228009
start: 433
end: 511
orientation: inline

BBa_K1228005
type: SequenceAnnotation
persistent identity: annotation2337491
display id: annotation2337491
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337491/range2337491/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337491/range2337491/1
type: Range
persistent identity: range2337491
display id: range2337491
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 350
end: 511
orientation: inline

BBa_K1228000
type: SequenceAnnotation
persistent identity: annotation2337486
display id: annotation2337486
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337486/range2337486/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337486/range2337486/1
type: Range
persistent identity: range2337486
display id: range2337486
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 228
end: 341
orientation: inline

rbs
type: SequenceAnnotation
persistent identity: annotation2337483
display id: annotation2337483
version: 1
top level: BBa_K1228009
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337483/range2337483/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337483/range2337483/1
type: Range
persistent identity: range2337483
display id: range2337483
version: 1
direction: direction/forward
top level: BBa_K1228009
start: 106
end: 117
orientation: inline

Sigma A-35
type: SequenceAnnotation
persistent identity: annotation2337481
display id: annotation2337481
version: 1
top level: BBa_K1228009
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337481/range2337481/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337481/range2337481/1
type: Range
persistent identity: range2337481
display id: range2337481
version: 1
direction: direction/forward
top level: BBa_K1228009
start: 63
end: 68
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2337484
display id: annotation2337484
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337484/range2337484/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337484/range2337484/1
type: Range
persistent identity: range2337484
display id: range2337484
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 106
end: 117
orientation: inline

BBa_K1228004
type: SequenceAnnotation
persistent identity: annotation2337488
display id: annotation2337488
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337488/range2337488/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337488/range2337488/1
type: Range
persistent identity: range2337488
display id: range2337488
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 350
end: 424
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2337478
display id: annotation2337478
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337478/range2337478/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337478/range2337478/1
type: Range
persistent identity: range2337478
display id: range2337478
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 1
end: 97
orientation: inline

BBa_K731722
type: SequenceAnnotation
persistent identity: annotation2337490
display id: annotation2337490
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337490/range2337490/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337490/range2337490/1
type: Range
persistent identity: range2337490
display id: range2337490
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 433
end: 511
orientation: inline

BBa_K143053
type: SequenceAnnotation
persistent identity: annotation2337479
display id: annotation2337479
version: 1
top level: BBa_K1228009
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K1228009/annotation2337479/range2337479/1

https://synbiohub.org/public/igem/BBa_K1228009/annotation2337479/range2337479/1
type: Range
persistent identity: range2337479
display id: range2337479
version: 1
direction: direction/reverse
top level: BBa_K1228009
start: 1
end: 117
orientation: inline

BBa_J179001
type: ComponentDefinition
persistent identity: BBa J179001
display id: BBa_J179001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pBS2E: Bacillus subtilis vector, lacA integration, MLS resistance
creator: Jara Radeck
created: 2013-12-20T12:00:00Z
modified: 2015-08-31T04:08:35Z
discontinued: false
dominant: false
experience: experience/None
group u list: _865_
m user id: 0
owner id: 6378
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This part is an empty backbone vector for the usage in Bacillus subtilis. It integrates in the lacA locus and can be selected with erythromycin + lincomycin (MLS). It has a ampicillin resistance for cloning in E.coli.
mutable notes: Compatible with pBs1C and pBs4S in one strain.
mutable provenance: This backbone is a BioBricked version of the B. subtilis vector pAX01. This BioBrick is part of the LMU 2012 igem project [http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks '''''Bacillus''B'''io'''B'''rick'''B'''ox] Reference: [http://www.ncbi.nlm.nih.gov/pubmed/11274134 H??rtl ''et al.'']
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: lacA front
sequence annotation: bla
sequence annotation: ori
sequence annotation: lacA back
sequence annotation: erm
sequence: https://synbiohub.org/public/igem/BBa_J179001_sequence/1

lacA front
type: SequenceAnnotation
persistent identity: annotation2371764
display id: annotation2371764
version: 1
top level: BBa_J179001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179001/annotation2371764/range2371764/1

https://synbiohub.org/public/igem/BBa_J179001/annotation2371764/range2371764/1
type: Range
persistent identity: range2371764
display id: range2371764
version: 1
direction: direction/reverse
top level: BBa_J179001
start: 4078
end: 4593
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2371762
display id: annotation2371762
version: 1
top level: BBa_J179001
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179001/annotation2371762/range2371762/1

https://synbiohub.org/public/igem/BBa_J179001/annotation2371762/range2371762/1
type: Range
persistent identity: range2371762
display id: range2371762
version: 1
direction: direction/forward
top level: BBa_J179001
start: 747
end: 1607
orientation: inline

ori
type: SequenceAnnotation
persistent identity: annotation2371763
display id: annotation2371763
version: 1
top level: BBa_J179001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179001/annotation2371763/range2371763/1

https://synbiohub.org/public/igem/BBa_J179001/annotation2371763/range2371763/1
type: Range
persistent identity: range2371763
display id: range2371763
version: 1
direction: direction/reverse
top level: BBa_J179001
start: 1758
end: 2381
orientation: inline

lacA back
type: SequenceAnnotation
persistent identity: annotation2371761
display id: annotation2371761
version: 1
top level: BBa_J179001
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179001/annotation2371761/range2371761/1

https://synbiohub.org/public/igem/BBa_J179001/annotation2371761/range2371761/1
type: Range
persistent identity: range2371761
display id: range2371761
version: 1
direction: direction/reverse
top level: BBa_J179001
start: 124
end: 531
orientation: inline

erm
type: SequenceAnnotation
persistent identity: annotation2371765
display id: annotation2371765
version: 1
top level: BBa_J179001
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179001/annotation2371765/range2371765/1

https://synbiohub.org/public/igem/BBa_J179001/annotation2371765/range2371765/1
type: Range
persistent identity: range2371765
display id: range2371765
version: 1
direction: direction/reverse
top level: BBa_J179001
start: 4891
end: 5628
orientation: inline

Pxyl
type: ComponentDefinition
persistent identity: BBa K143014
display id: BBa_K143014
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter Xyl for B.subtilis
creator: James Chappell
created: 2008-09-14T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Promoter Xylose is an inducible promoter that has been designed for high expression in ''B.subtilis''. Gene expression under the promoter xylose can be induced by addition of xylose. The context with which we used the promoter xylose, was to take an input of xylose and give '''Polymerase Per Second'''(PoPS) as an output. Promoter xylose is an inducible promoter that has been designed for high expression in ''B.subtilis''. Gene expression under the promoter xylose can be induced by addition of xylose. The context with which we used the promoter xylose, was to take an input of xylose and give '''Polymerase Per Second'''(PoPS) as an output. Xylose does not induce the promoter xylose directly, but requires the transcriptional regulator '''XylR''', ( BBa_K143036 ) This means that XylR must be constitutively expressed in ''B.subtilis'' in order to use the promoter xylose.
mutable notes: Biobrick standard was applied to the promoter xylose sequence.
mutable provenance: The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers 12. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Sigma A -35
sequence annotation: Sigma A -10
sequence annotation: XylR Operator
sequence: https://synbiohub.org/public/igem/BBa_K143014_sequence/1

Sigma A -35
type: SequenceAnnotation
persistent identity: annotation1976428
display id: annotation1976428
version: 1
top level: Pxyl
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143014/annotation1976428/range1976428/1

https://synbiohub.org/public/igem/BBa_K143014/annotation1976428/range1976428/1
type: Range
persistent identity: range1976428
display id: range1976428
version: 1
direction: direction/forward
top level: Pxyl
start: 13
end: 18
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation1976429
display id: annotation1976429
version: 1
top level: Pxyl
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143014/annotation1976429/range1976429/1

https://synbiohub.org/public/igem/BBa_K143014/annotation1976429/range1976429/1
type: Range
persistent identity: range1976429
display id: range1976429
version: 1
direction: direction/forward
top level: Pxyl
start: 36
end: 41
orientation: inline

XylR Operator
type: SequenceAnnotation
persistent identity: annotation1975869
display id: annotation1975869
version: 1
top level: Pxyl
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K143014/annotation1975869/range1975869/1

https://synbiohub.org/public/igem/BBa_K143014/annotation1975869/range1975869/1
type: Range
persistent identity: range1975869
display id: range1975869
version: 1
direction: direction/forward
top level: Pxyl
start: 65
end: 75
orientation: inline

XylR Operator
type: SequenceAnnotation
persistent identity: annotation1975868
display id: annotation1975868
version: 1
top level: Pxyl
role: SO:0000057
role: feature/operator
location: https://synbiohub.org/public/igem/BBa_K143014/annotation1975868/range1975868/1

https://synbiohub.org/public/igem/BBa_K143014/annotation1975868/range1975868/1
type: Range
persistent identity: range1975868
display id: range1975868
version: 1
direction: direction/forward
top level: Pxyl
start: 51
end: 61
orientation: inline

BBa_K1937006
type: ComponentDefinition
persistent identity: BBa K1937006
display id: BBa_K1937006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pNagP-RFP in pSBBs0K-mini plasmid
creator: Oumnia KARIM
created: 2016-10-13T11:00:00Z
modified: 2016-10-17T01:43:38Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2404_
m user id: 21497
owner id: 30403
owning group id: 9
status: status/Planning
bookmark: false
mutable description: (Chassis B. subtilis, carrier plasmid pSBBS0K) Length: 6843 bp Background: pNagP is the promoter of the NagP gene, which expresses a transporter of N-acetylglucosamine-6-phosphate in Bacillus subtilis (http://www.biocyc.org/gene?orgid=BSUB&id=BSU07700). This BioBrick is a part developed by the Toulouse 2016 iGEM team (http://2016.igem.org/Team:Toulouse_France)
mutable notes: The BBa_K1937006 part was designed to demonstrate the induction of pNagP by NAG. It belongs tothe antifungal module in the Paleolitis project of iGEM Toulouse 2016 (http://2016.igem.org/Team:Toulouse_France). The part include the pNagP promoter and its RBS (position 840,455 to 840,656 of the Bacillus genome). The promoter controls the expression of the RFP fluorescent reporter gene. A NheI restriction site has been placed before the RFP ORF to facilitate promoter swapping. This part is a subcloning of BBa_K1937005 pNagP part in pSBBS0K_mini plasmid (BBa_K1937001).
mutable provenance: In bacillus subtilis, this promoter has been reported to induce expression in presence of N-acetylglucosamine 6-phosphate (Bertram et al., 2011: https://www.ncbi.nlm.nih.gov/pubmed/21602348). This NAG molecule is the major component of chitin, a characteristic molecule of fungi.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1937005
component: BBa_K1937001
sequence annotation: BBa_K1937001
sequence annotation: BBa_K1937005
sequence: https://synbiohub.org/public/igem/BBa_K1937006_sequence/1

BBa_K1937005
type: Component
persistent identity: component2501231
display id: component2501231
version: 1
top level: BBa_K1937006
access: public
definition: https://synbiohub.org/public/igem/BBa_K1937005/1

BBa_K1937001
type: Component
persistent identity: component2501241
display id: component2501241
version: 1
top level: BBa_K1937006
access: public
definition: BBa_K1937001

BBa_K1937001
type: SequenceAnnotation
persistent identity: annotation2501241
display id: annotation2501241
version: 1
top level: BBa_K1937006
location: https://synbiohub.org/public/igem/BBa_K1937006/annotation2501241/range2501241/1
component: BBa_K1937001

https://synbiohub.org/public/igem/BBa_K1937006/annotation2501241/range2501241/1
type: Range
persistent identity: range2501241
display id: range2501241
version: 1
direction: direction/reverse
top level: BBa_K1937006
start: 1022
end: 6878
orientation: inline

BBa_K1937005
type: SequenceAnnotation
persistent identity: annotation2501231
display id: annotation2501231
version: 1
top level: BBa_K1937006
location: https://synbiohub.org/public/igem/BBa_K1937006/annotation2501231/range2501231/1
component: BBa_K1937005

https://synbiohub.org/public/igem/BBa_K1937006/annotation2501231/range2501231/1
type: Range
persistent identity: range2501231
display id: range2501231
version: 1
direction: direction/reverse
top level: BBa_K1937006
start: 1
end: 1013
orientation: inline

BBa_K802007
type: ComponentDefinition
persistent identity: BBa K802007
display id: BBa_K802007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Biofilm repressor for B. subtilis strains
creator: Marion Traouan, Alex Mizgier
created: 2012-09-24T11:00:00Z
modified: 2016-02-01T01:03:09Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1058_
m user id: 4206
owner id: 13266
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part could be used to impede biofilm formation in B. subtilis.
mutable notes: The part has a Bacillus RBS before the abrB CDS.
mutable provenance: The abrB gene was isolated from Bacillus subtilis.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K802007_sequence/1

BBa_K090506
type: ComponentDefinition
persistent identity: BBa K090506
display id: BBa_K090506
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: ''Bacillus subtilis'' weak RBS
creator: Daniel Goodman
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:08:37Z
discontinued: false
dominant: false
experience: experience/None
group u list: _188_
m user id: 0
owner id: 3501
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is the weak version of the consensus RBS for Bacillus subtilis. The sequence is present in front of some B. subtilis operons, but is expected to give weaker expression than the consensus sequence. The consensus sequence AAAGGAGG (BBa_K090505) was changed to AGAGGTGG for this part.
mutable notes: The part must be 8 nucleotides away from the first methionine of the coding sequence, and so we added 'TGT' downstream of the actual binding sequence: AGAGGTGG. This, combined with the truncated non-CDS BioBrick prefix scar, gives exactly 8 'spacer bases' between the 3' end of the RBS and the start of the coding sequence.
mutable provenance: This part was synthesized directly.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence annotation: B. subtilis weak RBS
sequence: https://synbiohub.org/public/igem/BBa_K090506_sequence/1

B. subtilis weak RBS
type: SequenceAnnotation
persistent identity: annotation1992815
display id: annotation1992815
version: 1
top level: BBa_K090506
role: feature/rbs
role: SO:0000139
location: https://synbiohub.org/public/igem/BBa_K090506/annotation1992815/range1992815/1

https://synbiohub.org/public/igem/BBa_K090506/annotation1992815/range1992815/1
type: Range
persistent identity: range1992815
display id: range1992815
version: 1
direction: direction/forward
top level: BBa_K090506
start: 1
end: 8
orientation: inline

P43
type: ComponentDefinition
persistent identity: BBa K143013
display id: BBa_K143013
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter 43 a constitutive promoter for B. subtilis
creator: James Chappell
created: 2008-09-10T11:00:00Z
modified: 2015-05-08T01:10:23Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 2090
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Promoter 43 is a constitutive promoter that constitutively expresses the P43 protein in ''B.subtilis''. This promoter has been shown to be recognized and active during the exponential and lag phases of growth. It has been hypothesized that the ability to recognize the promoter in exponential and lag phase of growth is due to the recognition of the promoter by both sigma factor 55 (the major sigma factor) and sigma factor 37 (the lag phase sigma factor) 1. The P43 promoter has been previously used for constitutive expression of exogenous genes within ''B.subtilis'' vectors 2. The context with which we used the promoter P43 is as a '''Polymerase Per Second''' (PoPS) generator.
mutable notes: The biobrick part was designed to include the binding sites for both the sigma factor A and B. In addition the biobrick standard was applied to the promoter P43 sequence.
mutable provenance: The part was designed using the sequence from the ''B.subtilis'' genome and from previously published papers 2. This sequence was then synthesised by Geneart.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence annotation: Sigma B -35
sequence annotation: Sigma A -35
sequence annotation: Sigma A -10
sequence annotation: Sigma B -10
sequence: https://synbiohub.org/public/igem/BBa_K143013_sequence/1

Sigma B -35
type: SequenceAnnotation
persistent identity: annotation1975706
display id: annotation1975706
version: 1
top level: P43
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143013/annotation1975706/range1975706/1

https://synbiohub.org/public/igem/BBa_K143013/annotation1975706/range1975706/1
type: Range
persistent identity: range1975706
display id: range1975706
version: 1
direction: direction/forward
top level: P43
start: 14
end: 22
orientation: inline

Sigma A -35
type: SequenceAnnotation
persistent identity: annotation1975708
display id: annotation1975708
version: 1
top level: P43
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143013/annotation1975708/range1975708/1

https://synbiohub.org/public/igem/BBa_K143013/annotation1975708/range1975708/1
type: Range
persistent identity: range1975708
display id: range1975708
version: 1
direction: direction/forward
top level: P43
start: 24
end: 29
orientation: inline

Sigma A -10
type: SequenceAnnotation
persistent identity: annotation1975709
display id: annotation1975709
version: 1
top level: P43
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143013/annotation1975709/range1975709/1

https://synbiohub.org/public/igem/BBa_K143013/annotation1975709/range1975709/1
type: Range
persistent identity: range1975709
display id: range1975709
version: 1
direction: direction/forward
top level: P43
start: 47
end: 52
orientation: inline

Sigma B -10
type: SequenceAnnotation
persistent identity: annotation1975707
display id: annotation1975707
version: 1
top level: P43
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K143013/annotation1975707/range1975707/1

https://synbiohub.org/public/igem/BBa_K143013/annotation1975707/range1975707/1
type: Range
persistent identity: range1975707
display id: range1975707
version: 1
direction: direction/forward
top level: P43
start: 38
end: 47
orientation: inline

Pctc-spoVG
type: ComponentDefinition
persistent identity: BBa K143059
display id: BBa_K143059
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter ctc and RBS spoVG for B. subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Sigma B dependant promoter ctc( BBa_K143010 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. In ''B. subtilis'' endogenous sigma factor B is activated under mild stress. These mild stress conditions can be generally split into nutrient stress response and physical stress response. Nutrient stress response is triggered by low levels of ATP and GTP and physical stress response is triggered by exposure to blue light, salt, heat, acid or ethanol1. The promoter ctc has been used previously as a read out for the activation of sigma factor B 2. Pctc has been used to take an input of blue light and give a '''Ribosomes per second'''(RiPS) output. To work as a blue light receiver correctly, over-expression of the blue light receptor '''YtvA''' ( BBa_K143037 ) is required. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: Pctc-spoVG was synthesised by GeneArt
mutable provenance: The sequence of promoter ctc was obtained from the ''B. subtilis'' genome and published papers1 2. RBS-spoVG were obtained from papers3 and the sequence synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143021
component: BBa_K143010
sequence annotation: BBa_K143010
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K143059_sequence/1

BBa_K143021
type: Component
persistent identity: component1978542
display id: component1978542
version: 1
top level: Pctc-spoVG
access: public
definition: RBS-spoVG

BBa_K143010
type: Component
persistent identity: component1978540
display id: component1978540
version: 1
top level: Pctc-spoVG
access: public
definition: Pctc

BBa_K143010
type: SequenceAnnotation
persistent identity: annotation1978540
display id: annotation1978540
version: 1
top level: Pctc-spoVG
location: https://synbiohub.org/public/igem/BBa_K143059/annotation1978540/range1978540/1
component: BBa_K143010

https://synbiohub.org/public/igem/BBa_K143059/annotation1978540/range1978540/1
type: Range
persistent identity: range1978540
display id: range1978540
version: 1
direction: direction/reverse
top level: Pctc-spoVG
start: 1
end: 56
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1978542
display id: annotation1978542
version: 1
top level: Pctc-spoVG
location: https://synbiohub.org/public/igem/BBa_K143059/annotation1978542/range1978542/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143059/annotation1978542/range1978542/1
type: Range
persistent identity: range1978542
display id: range1978542
version: 1
direction: direction/reverse
top level: Pctc-spoVG
start: 65
end: 76
orientation: inline

Fur box
type: ComponentDefinition
persistent identity: BBa K1122069
display id: BBa_K1122069
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Ferric uptake repressor box
creator: Hugo Villanueva
created: 2013-07-23T11:00:00Z
modified: 2015-07-24T01:15:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1433_
m user id: 4206
owner id: 18022
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Ferric uptake repressor box (Fur box). When the ferric uptake repressor binds to it, it represses transcription.
mutable notes: Fur boxes differ, we used the consensus sequence which per se is not an actual sequence occuring within B. subtilis but rather the strongest sequence that Fur protein would bind to.
mutable provenance: Bacillus subtilis Fur box consensus sequence.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000167
role: partType/Regulatory
sequence: https://synbiohub.org/public/igem/BBa_K1122069_sequence/1

BBa_K1197001
type: ComponentDefinition
persistent identity: BBa K1197001
display id: BBa_K1197001
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Anti MazF construct (pHyperspank + Anti MazF + Double Terminator)
creator: Alişan Kayab??len
created: 2013-09-19T11:00:00Z
modified: 2015-06-08T11:15:36Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1511_
m user id: 4206
owner id: 12727
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Anti MazF is an antisense RNA producing sequence which is complemantary to MazF (K302033). MazF is a non-specific ribonuclease coding element which kills Bacillus subtilis. Anti MazF element produces an mRNA which is reverse complemantary to mRNA produced by MazF. Thus, Anti Mazf mRNA binds to MazF mRNA and inhibit its activity for coding MazF protein. With pHyperspank promoter, the production of Anti MazF will be depend on IPTG presence in the medium. If there is IPTG in medium, it will inactivate LacI which inhibit pHyperspank promoter. Thus, Anti MazF will be produced. On the other hand, if there is no IPTG in medium, LacI will inhibit pHyperspank and Anti MazF mRNA cannot be produced. As a result MazF protein will be produced, and kills the bacteria.
mutable notes: Anti MazF is designed as a complemantary sequence to the last 4 bases of the RBS sequence, 6 bases to the intermediate region and to the first 40 bases of MazF coding sequence, tottally 50 bases.
mutable provenance: It is synthesized as a reverse complementary sequence to MazF (K302033)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_B0015
component: BBa_K606040
component: BBa_K1197000
sequence annotation: BBa_K1197000
sequence annotation: BBa_B0015
sequence annotation: BBa_K606040
sequence: https://synbiohub.org/public/igem/BBa_K1197001_sequence/1

BBa_B0015
type: Component
persistent identity: component2355729
display id: component2355729
version: 1
top level: BBa_K1197001
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_K606040
type: Component
persistent identity: component2355721
display id: component2355721
version: 1
top level: BBa_K1197001
access: public
definition: https://synbiohub.org/public/igem/BBa_K606040/1

BBa_K1197000
type: Component
persistent identity: component2355722
display id: component2355722
version: 1
top level: BBa_K1197001
access: public
definition: BBa_K1197000

BBa_K1197000
type: SequenceAnnotation
persistent identity: annotation2355722
display id: annotation2355722
version: 1
top level: BBa_K1197001
location: https://synbiohub.org/public/igem/BBa_K1197001/annotation2355722/range2355722/1
component: BBa_K1197000

https://synbiohub.org/public/igem/BBa_K1197001/annotation2355722/range2355722/1
type: Range
persistent identity: range2355722
display id: range2355722
version: 1
direction: direction/reverse
top level: BBa_K1197001
start: 101
end: 150
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2355729
display id: annotation2355729
version: 1
top level: BBa_K1197001
location: https://synbiohub.org/public/igem/BBa_K1197001/annotation2355729/range2355729/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1197001/annotation2355729/range2355729/1
type: Range
persistent identity: range2355729
display id: range2355729
version: 1
direction: direction/reverse
top level: BBa_K1197001
start: 159
end: 287
orientation: inline

BBa_K606040
type: SequenceAnnotation
persistent identity: annotation2355721
display id: annotation2355721
version: 1
top level: BBa_K1197001
location: https://synbiohub.org/public/igem/BBa_K1197001/annotation2355721/range2355721/1
component: BBa_K606040

https://synbiohub.org/public/igem/BBa_K1197001/annotation2355721/range2355721/1
type: Range
persistent identity: range2355721
display id: range2355721
version: 1
direction: direction/reverse
top level: BBa_K1197001
start: 1
end: 92
orientation: inline

BBa_K1364017
type: ComponentDefinition
persistent identity: BBa K1364017
display id: BBa_K1364017
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promotor PlepA + RBS spoVG
creator: Jourdan Camille
created: 2014-10-01T11:00:00Z
modified: 2015-06-08T09:09:06Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: PlepA is a constitutive promotor in Bacillus subtilis (BBa_K823002) coupled with a RBS spoVG (BBa_K143021). To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.
mutable notes: The sequence has been verified by sequencing
mutable provenance: http://parts.igem.org/Part:BBa_K823002 http://parts.igem.org/Part:BBa_K143021
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K823002
component: BBa_K143021
sequence annotation: BBa_K823002
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K1364017_sequence/1

BBa_K823002
type: Component
persistent identity: component2392214
display id: component2392214
version: 1
top level: BBa_K1364017
access: public
definition: BBa_K823002

BBa_K143021
type: Component
persistent identity: component2392216
display id: component2392216
version: 1
top level: BBa_K1364017
access: public
definition: RBS-spoVG

BBa_K823002
type: SequenceAnnotation
persistent identity: annotation2392214
display id: annotation2392214
version: 1
top level: BBa_K1364017
location: https://synbiohub.org/public/igem/BBa_K1364017/annotation2392214/range2392214/1
component: BBa_K823002

https://synbiohub.org/public/igem/BBa_K1364017/annotation2392214/range2392214/1
type: Range
persistent identity: range2392214
display id: range2392214
version: 1
direction: direction/reverse
top level: BBa_K1364017
start: 1
end: 157
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation2392216
display id: annotation2392216
version: 1
top level: BBa_K1364017
location: https://synbiohub.org/public/igem/BBa_K1364017/annotation2392216/range2392216/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K1364017/annotation2392216/range2392216/1
type: Range
persistent identity: range2392216
display id: range2392216
version: 1
direction: direction/reverse
top level: BBa_K1364017
start: 166
end: 177
orientation: inline

BBa_K1085002
type: ComponentDefinition
persistent identity: BBa K1085002
display id: BBa_K1085002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SpiderSilkSubunitE2
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:08:23Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitE1) with Bacillus Subtilis ribosome binding site (RBS) infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. SubunitE1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites. The amino acid sequence is based on the adapted MaSp2 sequences discribed in the paper of Brooks et. al. 2008.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from the paper by Brooks et al. (2008). The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spidersilk subunit E2
sequence: https://synbiohub.org/public/igem/BBa_K1085002_sequence/1

spidersilk subunit E2
type: SequenceAnnotation
persistent identity: annotation2339043
display id: annotation2339043
version: 1
top level: BBa_K1085002
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085002/annotation2339043/range2339043/1

https://synbiohub.org/public/igem/BBa_K1085002/annotation2339043/range2339043/1
type: Range
persistent identity: range2339043
display id: range2339043
version: 1
direction: direction/forward
top level: BBa_K1085002
start: 1
end: 210
orientation: inline

Sporovecto
type: ComponentDefinition
persistent identity: BBa K823054
display id: BBa_K823054
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Sporovector
creator: Jara Radeck
created: 2012-09-22T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1081_
m user id: 0
owner id: 6378
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: For N-terminal fusion proteins with cgeA (display on B. subtilis spores).=='''Sporo'''vector== Our '''Sporo'''vector is specially designed to give you the opportunity to easily create Sporobeads with any proteins you can think of. It is available as BioBrick in pSB1C3 and can be cloned in any of our empty ''B. subtilis'' vectors. We also offer it ???precloned??? in pSBBs4S which in this version lacks ''NgoM''IV restriction sites. The '''Sporo'''vector was created by ligation of three cut PCR-products. It is designed to allow N-terminal fusion of genes in Freiburg standard ([http://dspace.mit.edu/bitstream/handle/1721.1/45140/BBF_RFC%2025.pdf?sequence=1 RCF25]). Therefore, the gene to be inserted must be cut with ''Xba''I and ''Age''I and the vector must be digested with ''Xba''I and ''NgoM''IV. By this digest, the RFP cassette will be removed from this vector to allow easy selection for the integration of the new insert. After ligation, there is a scar of six nucleotides between both genes but no restriction site left. The gene fusion is controlled by the P''cot''YZ-promoter which was the strongest one in our promoter evaluations. The C-terminal gene part is ''cge''A, one of the two known spore crust proteins. The vector is cloned but has not been tested with an insert, yet. We are working on further '''Sporo'''vectors to offer also fusion with ''cot''Z as well as C-terminal fusions.
mutable notes: For N-terminal fusion proteins with cgeA (display on B. subtilis spores)
mutable provenance: Assembly of several PCRs.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
sequence annotation: PcotYZ
sequence annotation: cgeA
sequence annotation: hom
sequence annotation: thrB
sequence annotation: EcoRI
sequence annotation: B0014
sequence annotation: PstI
sequence annotation: AgeI
sequence annotation: thrC
sequence annotation: spec
sequence annotation: bla
sequence annotation: NgoMIV
sequence annotation: RFP
sequence annotation: XbaI
sequence: https://synbiohub.org/public/igem/BBa_K823054_sequence/1

PcotYZ
type: SequenceAnnotation
persistent identity: annotation2195353
display id: annotation2195353
version: 1
top level: Sporovecto
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195353/range2195353/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195353/range2195353/1
type: Range
persistent identity: range2195353
display id: range2195353
version: 1
direction: direction/forward
top level: Sporovecto
start: 773
end: 958
orientation: inline

cgeA
type: SequenceAnnotation
persistent identity: annotation2195357
display id: annotation2195357
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195357/range2195357/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195357/range2195357/1
type: Range
persistent identity: range2195357
display id: range2195357
version: 1
direction: direction/forward
top level: Sporovecto
start: 2038
end: 2439
orientation: inline

hom
type: SequenceAnnotation
persistent identity: annotation2195350
display id: annotation2195350
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195350/range2195350/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195350/range2195350/1
type: Range
persistent identity: range2195350
display id: range2195350
version: 1
direction: direction/forward
top level: Sporovecto
start: 1
end: 247
orientation: inline

thrB
type: SequenceAnnotation
persistent identity: annotation2195363
display id: annotation2195363
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195363/range2195363/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195363/range2195363/1
type: Range
persistent identity: range2195363
display id: range2195363
version: 1
direction: direction/forward
top level: Sporovecto
start: 3980
end: 4390
orientation: inline

EcoRI
type: SequenceAnnotation
persistent identity: annotation2195352
display id: annotation2195352
version: 1
top level: Sporovecto
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195352/range2195352/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195352/range2195352/1
type: Range
persistent identity: range2195352
display id: range2195352
version: 1
direction: direction/forward
top level: Sporovecto
start: 766
end: 772
orientation: inline

hom
type: SequenceAnnotation
persistent identity: annotation2195365
display id: annotation2195365
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195365/range2195365/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195365/range2195365/1
type: Range
persistent identity: range2195365
display id: range2195365
version: 1
direction: direction/forward
top level: Sporovecto
start: 6258
end: 6313
orientation: inline

B0014
type: SequenceAnnotation
persistent identity: annotation2195359
display id: annotation2195359
version: 1
top level: Sporovecto
role: feature/stem loop
role: SO:0000313
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195359/range2195359/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195359/range2195359/1
type: Range
persistent identity: range2195359
display id: range2195359
version: 1
direction: direction/forward
top level: Sporovecto
start: 2448
end: 2542
orientation: inline

PstI
type: SequenceAnnotation
persistent identity: annotation2195360
display id: annotation2195360
version: 1
top level: Sporovecto
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195360/range2195360/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195360/range2195360/1
type: Range
persistent identity: range2195360
display id: range2195360
version: 1
direction: direction/forward
top level: Sporovecto
start: 2543
end: 2548
orientation: inline

AgeI
type: SequenceAnnotation
persistent identity: annotation2195358
display id: annotation2195358
version: 1
top level: Sporovecto
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195358/range2195358/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195358/range2195358/1
type: Range
persistent identity: range2195358
display id: range2195358
version: 1
direction: direction/forward
top level: Sporovecto
start: 2431
end: 2436
orientation: inline

thrC
type: SequenceAnnotation
persistent identity: annotation2195351
display id: annotation2195351
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195351/range2195351/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195351/range2195351/1
type: Range
persistent identity: range2195351
display id: range2195351
version: 1
direction: direction/forward
top level: Sporovecto
start: 247
end: 756
orientation: inline

spec
type: SequenceAnnotation
persistent identity: annotation2195361
display id: annotation2195361
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195361/range2195361/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195361/range2195361/1
type: Range
persistent identity: range2195361
display id: range2195361
version: 1
direction: direction/forward
top level: Sporovecto
start: 2738
end: 3412
orientation: inline

thrC
type: SequenceAnnotation
persistent identity: annotation2195362
display id: annotation2195362
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195362/range2195362/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195362/range2195362/1
type: Range
persistent identity: range2195362
display id: range2195362
version: 1
direction: direction/forward
top level: Sporovecto
start: 3555
end: 3983
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2195364
display id: annotation2195364
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195364/range2195364/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195364/range2195364/1
type: Range
persistent identity: range2195364
display id: range2195364
version: 1
direction: direction/reverse
top level: Sporovecto
start: 5243
end: 6103
orientation: inline

NgoMIV
type: SequenceAnnotation
persistent identity: annotation2195356
display id: annotation2195356
version: 1
top level: Sporovecto
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195356/range2195356/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195356/range2195356/1
type: Range
persistent identity: range2195356
display id: range2195356
version: 1
direction: direction/forward
top level: Sporovecto
start: 2035
end: 2040
orientation: inline

RFP
type: SequenceAnnotation
persistent identity: annotation2195355
display id: annotation2195355
version: 1
top level: Sporovecto
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195355/range2195355/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195355/range2195355/1
type: Range
persistent identity: range2195355
display id: range2195355
version: 1
direction: direction/forward
top level: Sporovecto
start: 1192
end: 1872
orientation: inline

XbaI
type: SequenceAnnotation
persistent identity: annotation2195354
display id: annotation2195354
version: 1
top level: Sporovecto
role: SO:0000110
role: feature/dna
location: https://synbiohub.org/public/igem/BBa_K823054/annotation2195354/range2195354/1

https://synbiohub.org/public/igem/BBa_K823054/annotation2195354/range2195354/1
type: Range
persistent identity: range2195354
display id: range2195354
version: 1
direction: direction/forward
top level: Sporovecto
start: 959
end: 964
orientation: inline

BBa_K302033
type: ComponentDefinition
persistent identity: BBa K302033
display id: BBa_K302033
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: mazF
creator: Philip Hall
created: 2010-10-24T11:00:00Z
modified: 2015-06-01T02:27:54Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 4206
owner id: 6345
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Encodes a stable non-specific ribonuclease in ''Bacillus Subtilis''. It is used in conjungtion with ''mazE'' in ''Bacillus Subtilis'' to provide a toxin-antitoxin in various stressful conditions. When transcribtion of both genes is turned off (as both are under contol of same promoter) ''mazE'' will be degraded faster than ''mazF''. There is then no inhibiton of ''mazF'', killing the cell.
mutable notes: Sequence isolated based upon the work of Pellegrini, O., Mathy, N., Gogos, A., Shapiro, L., and Condon, C. (2005) The ''Bacillus subtilis'' ydcDE operon encodes an endoribonuclease of the MazF/PemK family and its inhibitor. ''Mol Microbiol'' 56: 1139???1148.
mutable provenance: ''Bacillus Subtilis'' 168 strain
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: double TAA added
sequence: https://synbiohub.org/public/igem/BBa_K302033_sequence/1

double TAA added
type: SequenceAnnotation
persistent identity: annotation2099798
display id: annotation2099798
version: 1
top level: BBa_K302033
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K302033/annotation2099798/range2099798/1

https://synbiohub.org/public/igem/BBa_K302033/annotation2099798/range2099798/1
type: Range
persistent identity: range2099798
display id: range2099798
version: 1
direction: direction/forward
top level: BBa_K302033
start: 334
end: 339
orientation: inline

pSBBs3C
type: ComponentDefinition
persistent identity: BBa K823025
display id: BBa_K823025
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pSBBs3C-luxABCDE (lux reporter vector for B.subtilis)
creator: Jara Radeck
created: 2012-08-20T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part is a reporter vector for Bacillus subtilis. It integrates at the sacA locus of B.subtilis genome. It has a ampicillin resistance for cloning in E.coli and Chloramphenicol resistance for selection in B. subtilis. The multiple cloning site has a rfp for selection and is followed by the luxABCDE gene cluster for luminescence reporter assays. This BioBrick is part of the LMU-Munich 2012 igem project Bacillus BioBrickBOX http://2012.igem.org/Team:LMU-Munich/Bacillus_BioBricks
mutable notes: We removed any forbidden restriction sites by site-directed mutagenesis PCR. The clonging site also includes a rfp for selection for cloning in E.coli.
mutable provenance: This vector is an igem compatible version of the pAH328 Bacillus reporter vecotr.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: luxD
sequence annotation: luxA
sequence annotation: sacA
sequence annotation: luxE
sequence annotation: luxC
sequence annotation: cat
sequence annotation: luxB
sequence annotation: bla
sequence: https://synbiohub.org/public/igem/BBa_K823025_sequence/1

luxD
type: SequenceAnnotation
persistent identity: annotation2180250
display id: annotation2180250
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180250/range2180250/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180250/range2180250/1
type: Range
persistent identity: range2180250
display id: range2180250
version: 1
direction: direction/forward
top level: pSBBs3C
start: 3635
end: 4558
orientation: inline

luxA
type: SequenceAnnotation
persistent identity: annotation2180247
display id: annotation2180247
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180247/range2180247/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180247/range2180247/1
type: Range
persistent identity: range2180247
display id: range2180247
version: 1
direction: direction/forward
top level: pSBBs3C
start: 73
end: 1155
orientation: inline

sacA
type: SequenceAnnotation
persistent identity: annotation2180252
display id: annotation2180252
version: 1
top level: pSBBs3C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180252/range2180252/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180252/range2180252/1
type: Range
persistent identity: range2180252
display id: range2180252
version: 1
direction: direction/forward
top level: pSBBs3C
start: 5676
end: 6515
orientation: inline

luxE
type: SequenceAnnotation
persistent identity: annotation2180251
display id: annotation2180251
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180251/range2180251/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180251/range2180251/1
type: Range
persistent identity: range2180251
display id: range2180251
version: 1
direction: direction/forward
top level: pSBBs3C
start: 4583
end: 5695
orientation: inline

luxC
type: SequenceAnnotation
persistent identity: annotation2180249
display id: annotation2180249
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180249/range2180249/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180249/range2180249/1
type: Range
persistent identity: range2180249
display id: range2180249
version: 1
direction: direction/forward
top level: pSBBs3C
start: 2179
end: 3621
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2180255
display id: annotation2180255
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180255/range2180255/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180255/range2180255/1
type: Range
persistent identity: range2180255
display id: range2180255
version: 1
direction: direction/reverse
top level: pSBBs3C
start: 9661
end: 10323
orientation: inline

luxB
type: SequenceAnnotation
persistent identity: annotation2180248
display id: annotation2180248
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180248/range2180248/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180248/range2180248/1
type: Range
persistent identity: range2180248
display id: range2180248
version: 1
direction: direction/forward
top level: pSBBs3C
start: 1172
end: 2155
orientation: inline

bla
type: SequenceAnnotation
persistent identity: annotation2180253
display id: annotation2180253
version: 1
top level: pSBBs3C
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180253/range2180253/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180253/range2180253/1
type: Range
persistent identity: range2180253
display id: range2180253
version: 1
direction: direction/forward
top level: pSBBs3C
start: 6849
end: 7721
orientation: inline

sacA
type: SequenceAnnotation
persistent identity: annotation2180254
display id: annotation2180254
version: 1
top level: pSBBs3C
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K823025/annotation2180254/range2180254/1

https://synbiohub.org/public/igem/BBa_K823025/annotation2180254/range2180254/1
type: Range
persistent identity: range2180254
display id: range2180254
version: 1
direction: direction/forward
top level: pSBBs3C
start: 8712
end: 9503
orientation: inline

BBa_K1937003
type: ComponentDefinition
persistent identity: BBa K1937003
display id: BBa_K1937003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pNagA-RFP
creator: Oumnia KARIM
created: 2016-10-12T11:00:00Z
modified: 2016-10-17T01:18:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2404_
m user id: 21497
owner id: 30403
owning group id: 9
status: status/Planning
bookmark: true
mutable description: The BBa_K1937003 part was designed to demonstrate the induction of pNagA by NAG. It belongs tothe antifungal module in the Paleolitis project of iGEM Toulouse 2016 (http://2016.igem.org/Team:Toulouse_France). pNagA is the promoter of the NagA gene, which expresses a N-acetylglucosamine-6-phosphate deacetylasein in Bacillus subtilis In bacillus subtilis, this promoter has been reported to induce expression in presence of N-acetylglucosamine 6 phosphate. This NAG molecule is the major component of chitin, a characteristic molecule of fungi.
mutable notes: The part include the pNagA promoter and its RBS (position 3,595,156 to 3,595,356 of the Bacillus genome). The promoter controls the expression of the RFP fluorescent reporter gene. A NheI restriction site has been placed before the RFP ORF to facilitate promoter swapping.
mutable provenance: D'o?? vient le promoteur, le RBS, la s??quence codante... la s??quence en tant que telle aussi
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: Promoter NagP+RBS
sequence annotation: RFP
sequence annotation: Terminator
sequence: https://synbiohub.org/public/igem/BBa_K1937003_sequence/1

Promoter NagP+RBS
type: SequenceAnnotation
persistent identity: annotation2497358
display id: annotation2497358
version: 1
top level: BBa_K1937003
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1937003/annotation2497358/range2497358/1

https://synbiohub.org/public/igem/BBa_K1937003/annotation2497358/range2497358/1
type: Range
persistent identity: range2497358
display id: range2497358
version: 1
direction: direction/forward
top level: BBa_K1937003
start: 1
end: 200
orientation: inline

RFP
type: SequenceAnnotation
persistent identity: annotation2497359
display id: annotation2497359
version: 1
top level: BBa_K1937003
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1937003/annotation2497359/range2497359/1

https://synbiohub.org/public/igem/BBa_K1937003/annotation2497359/range2497359/1
type: Range
persistent identity: range2497359
display id: range2497359
version: 1
direction: direction/forward
top level: BBa_K1937003
start: 207
end: 912
orientation: inline

Terminator
type: SequenceAnnotation
persistent identity: annotation2497360
display id: annotation2497360
version: 1
top level: BBa_K1937003
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1937003/annotation2497360/range2497360/1

https://synbiohub.org/public/igem/BBa_K1937003/annotation2497360/range2497360/1
type: Range
persistent identity: range2497360
display id: range2497360
version: 1
direction: direction/forward
top level: BBa_K1937003
start: 913
end: 992
orientation: inline

BBa_K823020
type: ComponentDefinition
persistent identity: BBa K823020
display id: BBa_K823020
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: chloramphenicol acetyltransferase (cat)
creator: Simon Kelterborn
created: 2012-08-14T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: This part codes for the chloramphenicol acetyltransferase (cat) gene used in Bacillus subtilis for resistance against the antibiotic chloramphenicol. We constructed it in the freiburg standard (Assembly 25) for in-frame fusion-proteins. There is a Shine-Dalgarno Sequence (RBS) optimized for Bacillus subtilis included between the XbaI and NgoIV restriction site. You can use it both N-and C terminal fusions.
mutable notes: We constructed the part in the freiburg standard (Assembly 25). We included a Bacillus optimized RBS between the XbaI and NgoIV restriction site.
mutable provenance: Plasmid: Bacillus subtilis reporter vector pAC6
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_K823020_sequence/1

cat
type: SequenceAnnotation
persistent identity: annotation2179570
display id: annotation2179570
version: 1
top level: BBa_K823020
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K823020/annotation2179570/range2179570/1

https://synbiohub.org/public/igem/BBa_K823020/annotation2179570/range2179570/1
type: Range
persistent identity: range2179570
display id: range2179570
version: 1
direction: direction/forward
top level: BBa_K823020
start: 1
end: 645
orientation: inline

GFP-spore
type: ComponentDefinition
persistent identity: BBa K823049
display id: BBa_K823049
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PcotYZ - cotZ (-2aa) - gfp - Terminator
creator: Franziska D??rr
created: 2012-09-09T11:00:00Z
modified: 2015-05-08T01:13:30Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1081_
m user id: 0
owner id: 11555
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: This composite part expresses a gfp fusion protein on a B. subtilis spore.
mutable notes: This part is cloned in the B. subtilis pSBBs1C backbone vector for direct integration in the amyE locus of B. subtilis.
mutable provenance: genomic B. subtilis, registry (Termiantor), Plasmid (pGFPamy)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_B0014
component: BBa_K823031
component: BBa_K823030
component: BBa_K823039
sequence annotation: BBa_B0014
sequence annotation: BBa_K823039
sequence annotation: BBa_K823030
sequence annotation: BBa_K823031
sequence: https://synbiohub.org/public/igem/BBa_K823049_sequence/1

BBa_B0014
type: Component
persistent identity: component2182412
display id: component2182412
version: 1
top level: GFP-spore
access: public
definition: https://synbiohub.org/public/igem/BBa_B0014/1

BBa_K823031
type: Component
persistent identity: component2182403
display id: component2182403
version: 1
top level: GFP-spore
access: public
definition: cotZ

BBa_K823030
type: Component
persistent identity: component2182401
display id: component2182401
version: 1
top level: GFP-spore
access: public
definition: https://synbiohub.org/public/igem/BBa_K823030/1

BBa_K823039
type: Component
persistent identity: component2182405
display id: component2182405
version: 1
top level: GFP-spore
access: public
definition: BBa_K823039

BBa_B0014
type: SequenceAnnotation
persistent identity: annotation2182412
display id: annotation2182412
version: 1
top level: GFP-spore
location: https://synbiohub.org/public/igem/BBa_K823049/annotation2182412/range2182412/1
component: BBa_B0014

https://synbiohub.org/public/igem/BBa_K823049/annotation2182412/range2182412/1
type: Range
persistent identity: range2182412
display id: range2182412
version: 1
direction: direction/reverse
top level: GFP-spore
start: 1492
end: 1586
orientation: inline

BBa_K823039
type: SequenceAnnotation
persistent identity: annotation2182405
display id: annotation2182405
version: 1
top level: GFP-spore
location: https://synbiohub.org/public/igem/BBa_K823049/annotation2182405/range2182405/1
component: BBa_K823039

https://synbiohub.org/public/igem/BBa_K823049/annotation2182405/range2182405/1
type: Range
persistent identity: range2182405
display id: range2182405
version: 1
direction: direction/reverse
top level: GFP-spore
start: 639
end: 1483
orientation: inline

BBa_K823030
type: SequenceAnnotation
persistent identity: annotation2182401
display id: annotation2182401
version: 1
top level: GFP-spore
location: https://synbiohub.org/public/igem/BBa_K823049/annotation2182401/range2182401/1
component: BBa_K823030

https://synbiohub.org/public/igem/BBa_K823049/annotation2182401/range2182401/1
type: Range
persistent identity: range2182401
display id: range2182401
version: 1
direction: direction/reverse
top level: GFP-spore
start: 1
end: 187
orientation: inline

BBa_K823031
type: SequenceAnnotation
persistent identity: annotation2182403
display id: annotation2182403
version: 1
top level: GFP-spore
location: https://synbiohub.org/public/igem/BBa_K823049/annotation2182403/range2182403/1
component: BBa_K823031

https://synbiohub.org/public/igem/BBa_K823049/annotation2182403/range2182403/1
type: Range
persistent identity: range2182403
display id: range2182403
version: 1
direction: direction/reverse
top level: GFP-spore
start: 196
end: 630
orientation: inline

BBa_K1701006
type: ComponentDefinition
persistent identity: BBa K1701006
display id: BBa_K1701006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: CotC
creator: Wei Wei
created: 2015-09-13T11:00:00Z
modified: 2015-09-23T08:39:06Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _2119_
m user id: 21319
owner id: 21319
owning group id: 9
status: status/Planning
bookmark: false
mutable description: In B. subtilis the extracellular matrix is composed of two major components, an EPS and the protein TasA, which polymerizes into amyloid-like fibers.
mutable notes: NONE
mutable provenance: http://www.ncbi.nlm.nih.gov/nuccore/56068618
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1701006_sequence/1

BBa_K1399000
type: ComponentDefinition
persistent identity: BBa K1399000
display id: BBa_K1399000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RFP from Discosoma striata (coral) with AAV-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-16T11:00:00Z
modified: 2015-05-08T01:10:15Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: Mutant RFP from Discosoma striata (coral) (see part E1010) with added AAV-ssrA degradation tag (part I11012). The tag increases RFP turn-over rate, thus providing better temporal resolution of red fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. The tag encodes peptide sequence AANDENYAAAV and is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The AAV tag is reported to lead to reasonably fast protein degradation, degrading GFP with rate -0.012 per minute.[2] However, be aware that exact protein degradation rate depends on multiple factors: 1) ClpXP and ClpAP protease and SspB mediator concentrations; 2) Protein stability; 3) Km of binding to the protease; 4) Temperature [3]. [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3]Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to RFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additonal residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (AAV in this case) are recognised by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: RFP comes from part E1010, tag sequence was obtained from part I11012, but same tag was also usead in paper by Andersen et al., (1998).[2]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: cds
sequence annotation: AAV-ssrA tag
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399000_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383858
display id: annotation2383858
version: 1
top level: BBa_K1399000
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399000/annotation2383858/range2383858/1

https://synbiohub.org/public/igem/BBa_K1399000/annotation2383858/range2383858/1
type: Range
persistent identity: range2383858
display id: range2383858
version: 1
direction: direction/forward
top level: BBa_K1399000
start: 712
end: 714
orientation: inline

cds
type: SequenceAnnotation
persistent identity: annotation2383855
display id: annotation2383855
version: 1
top level: BBa_K1399000
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399000/annotation2383855/range2383855/1

https://synbiohub.org/public/igem/BBa_K1399000/annotation2383855/range2383855/1
type: Range
persistent identity: range2383855
display id: range2383855
version: 1
direction: direction/forward
top level: BBa_K1399000
start: 4
end: 675
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383857
display id: annotation2383857
version: 1
top level: BBa_K1399000
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399000/annotation2383857/range2383857/1

https://synbiohub.org/public/igem/BBa_K1399000/annotation2383857/range2383857/1
type: Range
persistent identity: range2383857
display id: range2383857
version: 1
direction: direction/forward
top level: BBa_K1399000
start: 709
end: 711
orientation: inline

AAV-ssrA tag
type: SequenceAnnotation
persistent identity: annotation2383856
display id: annotation2383856
version: 1
top level: BBa_K1399000
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399000/annotation2383856/range2383856/1

https://synbiohub.org/public/igem/BBa_K1399000/annotation2383856/range2383856/1
type: Range
persistent identity: range2383856
display id: range2383856
version: 1
direction: direction/forward
top level: BBa_K1399000
start: 676
end: 708
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383854
display id: annotation2383854
version: 1
top level: BBa_K1399000
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399000/annotation2383854/range2383854/1

https://synbiohub.org/public/igem/BBa_K1399000/annotation2383854/range2383854/1
type: Range
persistent identity: range2383854
display id: range2383854
version: 1
direction: direction/forward
top level: BBa_K1399000
start: 1
end: 3
orientation: inline

BBa_K1364016
type: ComponentDefinition
persistent identity: BBa K1364016
display id: BBa_K1364016
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: PlepA + RFP
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T09:08:05Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Reporter
role: SO:0000804
component: BBa_K606013
component: BBa_K823002
sequence annotation: BBa_K823002
sequence annotation: BBa_K606013
sequence: https://synbiohub.org/public/igem/BBa_K1364016_sequence/1

BBa_K606013
type: Component
persistent identity: component2392952
display id: component2392952
version: 1
top level: BBa_K1364016
access: public
definition: https://synbiohub.org/public/igem/BBa_K606013/1

BBa_K823002
type: Component
persistent identity: component2392938
display id: component2392938
version: 1
top level: BBa_K1364016
access: public
definition: BBa_K823002

BBa_K823002
type: SequenceAnnotation
persistent identity: annotation2392938
display id: annotation2392938
version: 1
top level: BBa_K1364016
location: https://synbiohub.org/public/igem/BBa_K1364016/annotation2392938/range2392938/1
component: BBa_K823002

https://synbiohub.org/public/igem/BBa_K1364016/annotation2392938/range2392938/1
type: Range
persistent identity: range2392938
display id: range2392938
version: 1
direction: direction/reverse
top level: BBa_K1364016
start: 1
end: 157
orientation: inline

BBa_K606013
type: SequenceAnnotation
persistent identity: annotation2392952
display id: annotation2392952
version: 1
top level: BBa_K1364016
location: https://synbiohub.org/public/igem/BBa_K1364016/annotation2392952/range2392952/1
component: BBa_K606013

https://synbiohub.org/public/igem/BBa_K1364016/annotation2392952/range2392952/1
type: Range
persistent identity: range2392952
display id: range2392952
version: 1
direction: direction/reverse
top level: BBa_K1364016
start: 166
end: 1026
orientation: inline

BBa_K143069
type: ComponentDefinition
persistent identity: BBa K143069
display id: BBa_K143069
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (Pveg-gsiB)
creator: Chris Hirst
created: 2008-10-25T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to the PoPS generator Pveg-gsiB ( BBa_K143052 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The Pveg-gsiB promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of Pveg-gsiB was obtained from papers.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the Pveg-gsiB that was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143001
component: BBa_K143020
component: BBa_K143012
sequence annotation: BBa_K143001
sequence annotation: BBa_K143012
sequence annotation: BBa_K143020
sequence: https://synbiohub.org/public/igem/BBa_K143069_sequence/1

BBa_K143001
type: Component
persistent identity: component2003610
display id: component2003610
version: 1
top level: BBa_K143069
access: public
definition: amyE 5 IS

BBa_K143020
type: Component
persistent identity: component2003615
display id: component2003615
version: 1
top level: BBa_K143069
access: public
definition: RBS-GsiB

BBa_K143012
type: Component
persistent identity: component2003613
display id: component2003613
version: 1
top level: BBa_K143069
access: public
definition: Pveg

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation2003610
display id: annotation2003610
version: 1
top level: BBa_K143069
location: https://synbiohub.org/public/igem/BBa_K143069/annotation2003610/range2003610/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143069/annotation2003610/range2003610/1
type: Range
persistent identity: range2003610
display id: range2003610
version: 1
direction: direction/reverse
top level: BBa_K143069
start: 1
end: 522
orientation: inline

BBa_K143012
type: SequenceAnnotation
persistent identity: annotation2003613
display id: annotation2003613
version: 1
top level: BBa_K143069
location: https://synbiohub.org/public/igem/BBa_K143069/annotation2003613/range2003613/1
component: BBa_K143012

https://synbiohub.org/public/igem/BBa_K143069/annotation2003613/range2003613/1
type: Range
persistent identity: range2003613
display id: range2003613
version: 1
direction: direction/reverse
top level: BBa_K143069
start: 531
end: 627
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation2003615
display id: annotation2003615
version: 1
top level: BBa_K143069
location: https://synbiohub.org/public/igem/BBa_K143069/annotation2003615/range2003615/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143069/annotation2003615/range2003615/1
type: Range
persistent identity: range2003615
display id: range2003615
version: 1
direction: direction/reverse
top level: BBa_K143069
start: 636
end: 646
orientation: inline

BBa_K1085009
type: ComponentDefinition
persistent identity: BBa K1085009
display id: BBa_K1085009
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SilkTail Strep-tag Stop-codon
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2015-06-02T12:11:00Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for silk tail with a Strep-tag behind it and ends with a stop codon. The Tail ??????. The Strep-tag, fused at the C terminal, is used both as a binding tag to use to inidicate its production and as a binding component to biotin.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acid sequence of the tail was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000417
role: partType/Protein Domain
sequence annotation: strep
sequence annotation: Stop codon (TGA)
sequence annotation: spidersilk C-terminal domain
sequence: https://synbiohub.org/public/igem/BBa_K1085009_sequence/1

strep
type: SequenceAnnotation
persistent identity: annotation2339061
display id: annotation2339061
version: 1
top level: BBa_K1085009
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1085009/annotation2339061/range2339061/1

https://synbiohub.org/public/igem/BBa_K1085009/annotation2339061/range2339061/1
type: Range
persistent identity: range2339061
display id: range2339061
version: 1
direction: direction/forward
top level: BBa_K1085009
start: 289
end: 312
orientation: inline

Stop codon (TGA)
type: SequenceAnnotation
persistent identity: annotation2362391
display id: annotation2362391
version: 1
top level: BBa_K1085009
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1085009/annotation2362391/range2362391/1

https://synbiohub.org/public/igem/BBa_K1085009/annotation2362391/range2362391/1
type: Range
persistent identity: range2362391
display id: range2362391
version: 1
direction: direction/forward
top level: BBa_K1085009
start: 313
end: 315
orientation: inline

spidersilk C-terminal domain
type: SequenceAnnotation
persistent identity: annotation2339062
display id: annotation2339062
version: 1
top level: BBa_K1085009
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085009/annotation2339062/range2339062/1

https://synbiohub.org/public/igem/BBa_K1085009/annotation2339062/range2339062/1
type: Range
persistent identity: range2339062
display id: range2339062
version: 1
direction: direction/forward
top level: BBa_K1085009
start: 1
end: 270
orientation: inline

BBa_K1351011
type: ComponentDefinition
persistent identity: BBa K1351011
display id: BBa_K1351011
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Bacillus subtilis sortase YhcS
creator: Mona Dotzler
created: 2014-10-04T11:00:00Z
modified: 2015-06-01T12:55:40Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: ''Bacillus subtilis'' sortase YhcS (UniProt [http://www.uniprot.org/uniprot/P54603 P54603]), responsible for anchoring its substrae YhcR (UniProt [http://www.uniprot.org/uniprot/P54602 P54602]) covalently to the peptidoglycan wall of ''B. subtilis''. A YhcR-based surface display system has been shown to covalently anchor heterologous proteins to the ''B. subtilis'' cell wall (Liew ''et. al.'', 2012). It was used in the [http://2014.igem.org/Team:LMU-Munich/Project/Bakillus BaKillus project] to display pathogen-specific peptides and mediate adhesion of ''B. subtlis'' to pathogens. It consists of four components: the sortase substrate with a signal peptide (this part), a linker ([http://parts.igem.org/Part:BBa_K1351009 BBa_K1351009]) and a cell wall-anchoring domain ([http://parts.igem.org/Part:BBa_K1351010 BBa_K1351010]) as well as the sortase YhcS itself ([http://parts.igem.org/Part:BBa_K1351011 BBa_K1351011]), whose overexpression increases the efficiency of the surface display. This part was generated in a modified version of RFC25, where a strong Shine Dalgarno Sequence (SD) is included, and has the following prefix and suffix: {| |prefix with EcoRI, NotI, XbaI, SD and NgoMIV: |GAATTCGCGGCCGCTTCTAGAGTAAGGAGGAGCCGGC |- |suffix with AgeI, SpeI, NotI and PstI: |ACCGGTTAATACTAGTAGCGGCCGCCTGCAG |} Sites of restriction enzymes generating compatible overhangs have the same color: EcoRI and PstI in blue, NotI in green, XbaI and SpeI in red, NgoMIV and AgeI in orange. Shine-Dalgarno sequence and stop codons are underlined.
mutable notes: none
mutable provenance: This part was generated by amplification from ''B. subtilis'' W168 gDNA with the primers listed below, followed by digestion with EcoRI and PstI and ligation into pSB1C3. YhcS_ENX_SD_Ngo_fwd: gatcGAATTCgcggccgctTCTAGAgtaaggaggaaGCCGGC GTGAAAAAAGTTATTCCACTATTCATCATTGC YhcS_SNP_rev: gatcCTGCAGcggccgctACTAGTa TTAAGTCACTCGTTTTCCATATATAATATAGCG An EcoRI site was removed by changing T to C at position 399 without altering the protein sequence by fusion PCR with the following mutagenesis primers: YhcS_EcoRI435mut_fwd: CGTCTTCTCCTGTCATATGGAGAATTtACATATGAAATTGTAAAAACAAAAATTGTCG YhcS_EcoRI435mut_rev: CGACAATTTTTGTTTTTACAATTTCATATGTaAATTCTCCATATGACAGGAGAAGACG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351011_sequence/1

BBa_K143068
type: ComponentDefinition
persistent identity: BBa K143068
display id: BBa_K143068
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AmyE integratable PoPS generator (P43-spoVG)
creator: Chris Hirst
created: 2008-10-25T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: AmyE 5' Integration sequence( BBa_K143001 ) coupled to the PoPS generator P43-spoVG ( BBa_K143051 ). The amyE 5' integration sequence allows integration into the ''B. subtilis'' genome at the amyE locus if the 3' amyE integration sequence( BBa_K143002 ) is cloned onto the 3' end of the construct. The P43-spoVG promoter and RBS for ''B. subtilis'' constitutively generate a PoPS output.
mutable notes: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase. The sequence of P43-spoVG was obtained from papers.
mutable provenance: The amyE 5' integration sequence was PCR cloned from the ''B. subtilis'' integration vector utilising Pfu DNA polymerase and cloned into a BioBrick with the P43-spoVG that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143013
component: BBa_K143001
component: BBa_K143021
sequence annotation: BBa_K143001
sequence annotation: BBa_K143021
sequence annotation: BBa_K143013
sequence: https://synbiohub.org/public/igem/BBa_K143068_sequence/1

BBa_K143013
type: Component
persistent identity: component1990234
display id: component1990234
version: 1
top level: BBa_K143068
access: public
definition: P43

BBa_K143001
type: Component
persistent identity: component1990229
display id: component1990229
version: 1
top level: BBa_K143068
access: public
definition: amyE 5 IS

BBa_K143021
type: Component
persistent identity: component1990236
display id: component1990236
version: 1
top level: BBa_K143068
access: public
definition: RBS-spoVG

BBa_K143001
type: SequenceAnnotation
persistent identity: annotation1990229
display id: annotation1990229
version: 1
top level: BBa_K143068
location: https://synbiohub.org/public/igem/BBa_K143068/annotation1990229/range1990229/1
component: BBa_K143001

https://synbiohub.org/public/igem/BBa_K143068/annotation1990229/range1990229/1
type: Range
persistent identity: range1990229
display id: range1990229
version: 1
direction: direction/reverse
top level: BBa_K143068
start: 1
end: 522
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1990236
display id: annotation1990236
version: 1
top level: BBa_K143068
location: https://synbiohub.org/public/igem/BBa_K143068/annotation1990236/range1990236/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143068/annotation1990236/range1990236/1
type: Range
persistent identity: range1990236
display id: range1990236
version: 1
direction: direction/reverse
top level: BBa_K143068
start: 595
end: 606
orientation: inline

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1990234
display id: annotation1990234
version: 1
top level: BBa_K143068
location: https://synbiohub.org/public/igem/BBa_K143068/annotation1990234/range1990234/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143068/annotation1990234/range1990234/1
type: Range
persistent identity: range1990234
display id: range1990234
version: 1
direction: direction/reverse
top level: BBa_K143068
start: 531
end: 586
orientation: inline

BBa_K294055
type: ComponentDefinition
persistent identity: BBa K294055
display id: BBa_K294055
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP RFP Hybrid
creator: Ryoji Sekine
created: 2009-06-26T11:00:00Z
modified: 2016-01-25T02:34:10Z
discontinued: false
dominant: false
group u list: _397_
m user id: 4206
owner id: 5313
owning group id: 9
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: This is a test. It may not bright.
mutable notes: E0040
mutable provenance: ATGCATATATATAATTT
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Hoge
sequence annotation: hogehoge
sequence: https://synbiohub.org/public/igem/BBa_K294055_sequence/1

Hoge
type: SequenceAnnotation
persistent identity: annotation2006753
display id: annotation2006753
version: 1
top level: BBa_K294055
role: SO:0000804
role: feature/BioBrick
location: https://synbiohub.org/public/igem/BBa_K294055/annotation2006753/range2006753/1

https://synbiohub.org/public/igem/BBa_K294055/annotation2006753/range2006753/1
type: Range
persistent identity: range2006753
display id: range2006753
version: 1
direction: direction/forward
top level: BBa_K294055
start: 200
end: 500
orientation: inline

hogehoge
type: SequenceAnnotation
persistent identity: annotation2006752
display id: annotation2006752
version: 1
top level: BBa_K294055
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K294055/annotation2006752/range2006752/1

https://synbiohub.org/public/igem/BBa_K294055/annotation2006752/range2006752/1
type: Range
persistent identity: range2006752
display id: range2006752
version: 1
direction: direction/forward
top level: BBa_K294055
start: 1
end: 100
orientation: inline

P43-gsiB
type: ComponentDefinition
persistent identity: BBa K143050
display id: BBa_K143050
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter 43 and RBS gsiB for B. subtilis
creator: Chris Hirst
created: 2008-09-28T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Constitutive promoter 43( BBa_K143013 ) coupled to the strong Ribosome Binding Site gsiB( BBa_K143020 ) from ''B. subtilis''. P43-gsiB can be used in the context of a Polymerase per second (PoPS) output generator.
mutable notes: The sequence of P43 and RBS-gsiB were obtained from papers1 2 and the sequence synthesised by GeneArt
mutable provenance: P43-gsiB was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143013
component: BBa_K143020
sequence annotation: BBa_K143013
sequence annotation: BBa_K143020
sequence: https://synbiohub.org/public/igem/BBa_K143050_sequence/1

BBa_K143013
type: Component
persistent identity: component1976870
display id: component1976870
version: 1
top level: P43-gsiB
access: public
definition: P43

BBa_K143020
type: Component
persistent identity: component1976872
display id: component1976872
version: 1
top level: P43-gsiB
access: public
definition: RBS-GsiB

BBa_K143013
type: SequenceAnnotation
persistent identity: annotation1976870
display id: annotation1976870
version: 1
top level: P43-gsiB
location: https://synbiohub.org/public/igem/BBa_K143050/annotation1976870/range1976870/1
component: BBa_K143013

https://synbiohub.org/public/igem/BBa_K143050/annotation1976870/range1976870/1
type: Range
persistent identity: range1976870
display id: range1976870
version: 1
direction: direction/reverse
top level: P43-gsiB
start: 1
end: 56
orientation: inline

BBa_K143020
type: SequenceAnnotation
persistent identity: annotation1976872
display id: annotation1976872
version: 1
top level: P43-gsiB
location: https://synbiohub.org/public/igem/BBa_K143050/annotation1976872/range1976872/1
component: BBa_K143020

https://synbiohub.org/public/igem/BBa_K143050/annotation1976872/range1976872/1
type: Range
persistent identity: range1976872
display id: range1976872
version: 1
direction: direction/reverse
top level: P43-gsiB
start: 65
end: 75
orientation: inline

GAFP-1
type: ComponentDefinition
persistent identity: BBa K1364007
display id: BBa_K1364007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS + Antifungal GAFP-1 + Double terminator
creator: Jourdan Camille
created: 2014-10-02T11:00:00Z
modified: 2015-06-08T08:40:49Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1740_
m user id: 4206
owner id: 21465
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: bla bla
mutable notes: bla
mutable provenance: bla
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1364002
component: BBa_B0015
sequence annotation: BBa_B0015
sequence annotation: BBa_K1364002
sequence: https://synbiohub.org/public/igem/BBa_K1364007_sequence/1

BBa_K1364002
type: Component
persistent identity: component2392847
display id: component2392847
version: 1
top level: GAFP-1
access: public
definition: GAFP-1

BBa_B0015
type: Component
persistent identity: component2392854
display id: component2392854
version: 1
top level: GAFP-1
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2392854
display id: annotation2392854
version: 1
top level: GAFP-1
location: https://synbiohub.org/public/igem/BBa_K1364007/annotation2392854/range2392854/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1364007/annotation2392854/range2392854/1
type: Range
persistent identity: range2392854
display id: range2392854
version: 1
direction: direction/reverse
top level: GAFP-1
start: 196
end: 324
orientation: inline

BBa_K1364002
type: SequenceAnnotation
persistent identity: annotation2392847
display id: annotation2392847
version: 1
top level: GAFP-1
location: https://synbiohub.org/public/igem/BBa_K1364007/annotation2392847/range2392847/1
component: BBa_K1364002

https://synbiohub.org/public/igem/BBa_K1364007/annotation2392847/range2392847/1
type: Range
persistent identity: range2392847
display id: range2392847
version: 1
direction: direction/reverse
top level: GAFP-1
start: 1
end: 187
orientation: inline

BBa_K143081
type: ComponentDefinition
persistent identity: BBa K143081
display id: BBa_K143081
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: P43-spoVG RFP expression construct
creator: Chris Hirst
created: 2008-10-27T12:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: RFP gene under expresson of the P43 promoter and spoVG RBS of ''B. subtilis'', with a chloramphenicol resistance marker for ease of selection. Also contains the 5' and 3' amyE integration sequences to allow integration into ''B. subtilis'' at the amyE locus. This device was used by the Imperial iGEM 2008 team to characterise the P43 promoter and spoVG RBS (Combined part BBa_K143051 ) as part of the Biofabricator ''subtilis'' project.
mutable notes: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 using Pfu DNA polymerase. The double terminator, RFP gene and chlorapmphenicol acetyltransferase gene were taken from the registry. The sequence of promoter P43 and RBS spoVG were taken from papers.
mutable provenance: The 5' and 3' amyE integration sequences were PCR cloned from the ''B. subtilis'' integration vector pDR111 utilising Pfu DNA polymerase and cloned into a BioBrick with the parts from the registry and the P43-spoVG part that was synthesised by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143076
component: BBa_K143072
sequence annotation: BBa_K143076
sequence annotation: BBa_K143072
sequence: https://synbiohub.org/public/igem/BBa_K143081_sequence/1

BBa_K143076
type: Component
persistent identity: component2232972
display id: component2232972
version: 1
top level: BBa_K143081
access: public
definition: BBa_K143076

BBa_K143072
type: Component
persistent identity: component2232959
display id: component2232959
version: 1
top level: BBa_K143081
access: public
definition: BBa_K143072

BBa_K143076
type: SequenceAnnotation
persistent identity: annotation2232972
display id: annotation2232972
version: 1
top level: BBa_K143081
location: https://synbiohub.org/public/igem/BBa_K143081/annotation2232972/range2232972/1
component: BBa_K143076

https://synbiohub.org/public/igem/BBa_K143081/annotation2232972/range2232972/1
type: Range
persistent identity: range2232972
display id: range2232972
version: 1
direction: direction/reverse
top level: BBa_K143081
start: 1500
end: 3352
orientation: inline

BBa_K143072
type: SequenceAnnotation
persistent identity: annotation2232959
display id: annotation2232959
version: 1
top level: BBa_K143081
location: https://synbiohub.org/public/igem/BBa_K143081/annotation2232959/range2232959/1
component: BBa_K143072

https://synbiohub.org/public/igem/BBa_K143081/annotation2232959/range2232959/1
type: Range
persistent identity: range2232959
display id: range2232959
version: 1
direction: direction/reverse
top level: BBa_K143081
start: 1
end: 1493
orientation: inline

BBa_K1351000
type: ComponentDefinition
persistent identity: BBa K1351000
display id: BBa_K1351000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: beta-Neurexin-derived peptide binding to S. aureus adhesin SdrC
creator: Mona Dotzler
created: 2014-09-14T11:00:00Z
modified: 2015-06-01T12:53:55Z
discontinued: false
dominant: false
group u list: _1726_
m user id: 4206
owner id: 20048
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Short peptide of 11 amino acids corresponding to the N-terminus of the human protein neurexin beta-1. It includes the binding site (HHIHHFH) for the Staphylococcus aureus adhesin SdrC. Displayed on the surface of Bacillus subtilis, it shoud enable B. subtilis to bind specifically to S. aureus.
mutable notes: Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
mutable provenance: The part was generated by annealing of artificially synthesized oligonucletides: Nrx1b_ENX_SD_Ngo_precutEP_fwd: AATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG GCGCACCACATTCACCACTTTCACGGATCA ACCGGTtaatACTAGTagcggccgCTGCA Nrx1b_SNP_Age_precutEP_rev: GcggccgctACTAGTattaACCGGT TGATCCGTGAAAGTGGTGAATGTGGTGCGC CATGCCGGCttcctccttacTCTAGAagcggccgcG
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351000_sequence/1

BBa_K302006
type: ComponentDefinition
persistent identity: BBa K302006
display id: BBa_K302006
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaI
creator: Rachel May Boyd, Steven Woodhouse, Alan
created: 2010-08-11T11:00:00Z
modified: 2015-05-08T01:11:52Z
discontinued: false
dominant: false
experience: experience/None
group u list: _442_
m user id: 0
owner id: 6345
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Membrane bound protein that binds subtilin and prevents it from penetrating the cell membrane to form pores.
mutable notes: Overlaps with ''spaF'' coding sequence at the 3' end
mutable provenance: Genebank
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: spaI
sequence annotation: spaF
sequence: https://synbiohub.org/public/igem/BBa_K302006_sequence/1

spaI
type: SequenceAnnotation
persistent identity: annotation2077592
display id: annotation2077592
version: 1
top level: BBa_K302006
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K302006/annotation2077592/range2077592/1

https://synbiohub.org/public/igem/BBa_K302006/annotation2077592/range2077592/1
type: Range
persistent identity: range2077592
display id: range2077592
version: 1
direction: direction/forward
top level: BBa_K302006
start: 1
end: 498
orientation: inline

spaF
type: SequenceAnnotation
persistent identity: annotation2077593
display id: annotation2077593
version: 1
top level: BBa_K302006
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K302006/annotation2077593/range2077593/1

https://synbiohub.org/public/igem/BBa_K302006/annotation2077593/range2077593/1
type: Range
persistent identity: range2077593
display id: range2077593
version: 1
direction: direction/forward
top level: BBa_K302006
start: 485
end: 498
orientation: inline

BBa_K104007
type: ComponentDefinition
persistent identity: BBa K104007
display id: BBa_K104007
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Term_rrnO
creator: Anil Wipat
created: 2009-10-13T11:00:00Z
modified: 2015-06-09T08:51:00Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is an efficient termintor sequence from Bacillus that normally terminates the rrnO-16S-trnO-Ile-trnO-Ala-rrnO-23S-rrnO-5S operon.
mutable notes: This terminator forms part of the complex device BBa_K104001
mutable provenance: The sequence was derived from DBTBS http://dbtbs.hgc.jp/COG/prom/rrnO-16S-trnO-Ile-trnO-Ala-rrnO-23S-rrnO-5S.html
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000141
role: partType/Terminator
sequence: https://synbiohub.org/public/igem/BBa_K104007_sequence/1

Pxyl-spoVG
type: ComponentDefinition
persistent identity: BBa K143057
display id: BBa_K143057
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter xyl and RBS spoVG for B subtilis
creator: Chris Hirst
created: 2008-10-05T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Inducible promoter xyl( BBa_K143014 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. Pxyl-spoVG can be used to take an input of xylose and give a '''Ribosomes per second''' (RiPS) output generator. Xylose does not directly induce the expression of the promoter xyl, but requires the transcriptional regulator '''XylR''', ( BBa_K143036 ). This means that XylR must be constitutively expressed in ''B.subtilis'' in order to use the promoter hyper-spank as an inducible promoter. XylR is naturally expressed by ''B. subtilis'' but should be upregulated to increase efficiency. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter xyl and RBS-spoVG were obtained from papers1 2 3 and the sequence synthesised by GeneArt
mutable provenance: Pxyl-spoVG was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143021
component: BBa_K143014
sequence annotation: BBa_K143014
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K143057_sequence/1

BBa_K143021
type: Component
persistent identity: component1978554
display id: component1978554
version: 1
top level: Pxyl-spoVG
access: public
definition: RBS-spoVG

BBa_K143014
type: Component
persistent identity: component1978552
display id: component1978552
version: 1
top level: Pxyl-spoVG
access: public
definition: Pxyl

BBa_K143014
type: SequenceAnnotation
persistent identity: annotation1978552
display id: annotation1978552
version: 1
top level: Pxyl-spoVG
location: https://synbiohub.org/public/igem/BBa_K143057/annotation1978552/range1978552/1
component: BBa_K143014

https://synbiohub.org/public/igem/BBa_K143057/annotation1978552/range1978552/1
type: Range
persistent identity: range1978552
display id: range1978552
version: 1
direction: direction/reverse
top level: Pxyl-spoVG
start: 1
end: 82
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1978554
display id: annotation1978554
version: 1
top level: Pxyl-spoVG
location: https://synbiohub.org/public/igem/BBa_K143057/annotation1978554/range1978554/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143057/annotation1978554/range1978554/1
type: Range
persistent identity: range1978554
display id: range1978554
version: 1
direction: direction/reverse
top level: Pxyl-spoVG
start: 91
end: 102
orientation: inline

BBa_K1085005
type: ComponentDefinition
persistent identity: BBa K1085005
display id: BBa_K1085005
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS Start-codon SpiderSilkSubunitN1
creator: Claudio Tiecher
created: 2013-09-09T11:00:00Z
modified: 2016-02-10T01:11:44Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1395_
m user id: 0
m user id: 4206
owner id: 16089
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: This BioBrick contains the coding sequence for part of the spider silk protein (SubunitN1) with Bacillus Subtilis ribosome binding site (RBS) infront of it. The RBS is there to allow the ribosomes to bind and start to translate the DNA. SubunitN1 codes for a spider silk protein that is optimized for maximal expression in Bacillus subtillus 168. The primary goal of the algorithm was to optimize the codon selection based on their availbility scores. The secondary goal was to prevent the formation of secondary RNA structures in close proximity to the RBS, and the tetrary goal was to minimize the number of restriction sites.
mutable notes: The DNA sequence was codon-optimized for Bacillus Subtilis. Moreover the nucleotide sequence was optimized in order to accomplish the production standard of IDT. A couple of optimized codons were affected by this.
mutable provenance: The amino acids sequence of the silk protein was obtained from MaSp2. The DNA sequence was synthesized by Integrated DNA Technologies (IDT).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: RBS
sequence annotation: starting codon (ATG)
sequence annotation: spidersilk subunit N1
sequence: https://synbiohub.org/public/igem/BBa_K1085005_sequence/1

RBS
type: SequenceAnnotation
persistent identity: annotation2339052
display id: annotation2339052
version: 1
top level: BBa_K1085005
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_K1085005/annotation2339052/range2339052/1

https://synbiohub.org/public/igem/BBa_K1085005/annotation2339052/range2339052/1
type: Range
persistent identity: range2339052
display id: range2339052
version: 1
direction: direction/forward
top level: BBa_K1085005
start: 1
end: 6
orientation: inline

starting codon (ATG)
type: SequenceAnnotation
persistent identity: annotation2339053
display id: annotation2339053
version: 1
top level: BBa_K1085005
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1085005/annotation2339053/range2339053/1

https://synbiohub.org/public/igem/BBa_K1085005/annotation2339053/range2339053/1
type: Range
persistent identity: range2339053
display id: range2339053
version: 1
direction: direction/forward
top level: BBa_K1085005
start: 14
end: 16
orientation: inline

spidersilk subunit N1
type: SequenceAnnotation
persistent identity: annotation2339054
display id: annotation2339054
version: 1
top level: BBa_K1085005
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085005/annotation2339054/range2339054/1

https://synbiohub.org/public/igem/BBa_K1085005/annotation2339054/range2339054/1
type: Range
persistent identity: range2339054
display id: range2339054
version: 1
direction: direction/forward
top level: BBa_K1085005
start: 17
end: 157
orientation: inline

mRFP1
type: ComponentDefinition
persistent identity: BBa E1010
display id: BBa_E1010
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: **highly** engineered mutant of red fluorescent protein from Discosoma striata (coral)
creator: Drew Endy
created: 2004-07-27T11:00:00Z
modified: 2015-08-31T04:07:26Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _11_1_
m user id: 0
owner id: 52
owning group id: 7
part status: Released HQ 2013
sample status: In stock
status: status/Available
bookmark: false
mutable description: monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm
mutable notes: TAATAA double stop codon added (DE). Four silent mutations made to remove three EcoRI sites and one PstI site: A28G, A76G, A349G, G337A.
mutable provenance: Campbell et al., PNAS v99 p7877 URL
owned by: james
owned by: myers
star: true
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: Help:Barcodes
sequence annotation: mrfp1
sequence: https://synbiohub.org/public/igem/BBa_E1010_sequence/1

Help:Barcodes
type: SequenceAnnotation
persistent identity: annotation2214014
display id: annotation2214014
version: 1
top level: mRFP1
role: SO:0000807
role: feature/barcode
location: https://synbiohub.org/public/igem/BBa_E1010/annotation2214014/range2214014/1

https://synbiohub.org/public/igem/BBa_E1010/annotation2214014/range2214014/1
type: Range
persistent identity: range2214014
display id: range2214014
version: 1
direction: direction/forward
top level: mRFP1
start: 682
end: 706
orientation: inline

mrfp1
type: SequenceAnnotation
persistent identity: annotation1014044
display id: annotation1014044
version: 1
top level: mRFP1
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_E1010/annotation1014044/range1014044/1

https://synbiohub.org/public/igem/BBa_E1010/annotation1014044/range1014044/1
type: Range
persistent identity: range1014044
display id: range1014044
version: 1
direction: direction/forward
top level: mRFP1
start: 1
end: 675
orientation: inline

BBa_K174002
type: ComponentDefinition
persistent identity: BBa K174002
display id: BBa_K174002
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Arabinose controlled protein degradation device
creator: The Newcastle 2009 iGEM team
created: 2009-09-25T11:00:00Z
modified: 2015-05-08T01:10:58Z
discontinued: false
dominant: false
experience: experience/None
group u list: _277_
m user id: 0
owner id: 3942
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: The purpose of this system is to control the expression of sspB, the degradation controller. The system is inducible by arabinose, therefore we can alter the arabinose levels to regulate the degradation of proteins with sspB degradation tag
mutable notes: sspB Biobrick is inserted after araR promoter+rbs system
mutable provenance: Comprised of other Biobricks
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K174001
component: BBa_K174000
sequence annotation: BBa_K174000
sequence annotation: BBa_K174001
sequence: https://synbiohub.org/public/igem/BBa_K174002_sequence/1

BBa_K174001
type: Component
persistent identity: component2027244
display id: component2027244
version: 1
top level: BBa_K174002
access: public
definition: BBa_K174001

BBa_K174000
type: Component
persistent identity: component2027246
display id: component2027246
version: 1
top level: BBa_K174002
access: public
definition: https://synbiohub.org/public/igem/BBa_K174000/1

BBa_K174000
type: SequenceAnnotation
persistent identity: annotation2027246
display id: annotation2027246
version: 1
top level: BBa_K174002
location: https://synbiohub.org/public/igem/BBa_K174002/annotation2027246/range2027246/1
component: BBa_K174000

https://synbiohub.org/public/igem/BBa_K174002/annotation2027246/range2027246/1
type: Range
persistent identity: range2027246
display id: range2027246
version: 1
direction: direction/reverse
top level: BBa_K174002
start: 222
end: 719
orientation: inline

BBa_K174001
type: SequenceAnnotation
persistent identity: annotation2027244
display id: annotation2027244
version: 1
top level: BBa_K174002
location: https://synbiohub.org/public/igem/BBa_K174002/annotation2027244/range2027244/1
component: BBa_K174001

https://synbiohub.org/public/igem/BBa_K174002/annotation2027244/range2027244/1
type: Range
persistent identity: range2027244
display id: range2027244
version: 1
direction: direction/reverse
top level: BBa_K174002
start: 1
end: 215
orientation: inline

BBa_K541525
type: ComponentDefinition
persistent identity: BBa K541525
display id: BBa_K541525
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LALF for Bacillus subtilis with LipA signal peptide
creator: Fazilet Guler
created: 2011-07-18T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/None
group u list: _708_
m user id: 0
owner id: 8463
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: Constitutive promoter veg(BBa_K143012) coupled to the strong Ribosome Binding Site spoVG(BBa_K143021) from B. subtilis. These parts have been taken from 2008_Imperial_Collage. Pveg is a constitutive promoter that constitutively expresses the P43 protein in B. subtilis. SpoVG is an endogenous ribosome binding site from B. subtilis. The sequence of the spoVG ribosome binding site is AAAGGUGGUGA which is complementary to the sequence UUUCCUCCACU from the 3' region of the 16s rRNA from B. subtilis. LipA is a signal peptide from the B. subtilis genome. In general, signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached)through an appropriate secretory pathway[3]. LipA has been successfully used in the secretion of heterologous proteins such as cutinase by B. subtilis. Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Molecules that bind LPS and neutralize its biological effects or enhance its clearance could have important clinical applications. Limulus anti-LPS factor (LALF) binds LPS tightly, and, in animal models, reduces mortality when administered before or after LPS challenge or bacterial infection. The wedge- shaped molecule has a striking charge distribution and amphipathicity that suggest how it can insert into membranes. The binding site for LPS probably involves an extended amphipathic loop, and it has been proposed that two mammalian LPS-binding proteins will have a similar loop. The amphipathic loop structure may be used in the design of molecules with therapeutic properties against septic shock.
mutable notes: optimized for b.subtilis
mutable provenance: horseshoe crab and b.subtilis
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Device
role: SO:0000804
sequence: https://synbiohub.org/public/igem/BBa_K541525_sequence/1

BBa_K541800
type: ComponentDefinition
persistent identity: BBa K541800
display id: BBa_K541800
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: B.subtilis and E.coli Episomal Shuttle Vector with Consitutive RFP to express in E.coli
creator: Mustafa Elitok
created: 2011-09-20T11:00:00Z
modified: 2015-05-08T01:12:38Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _708_
m user id: 0
owner id: 9573
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: This episomal vector has within its BioBrick region a constitutively expressed RFP gene in E.coli. It uses LacI promoter, B0034, mRFP1 (E0010) and B0015.
mutable notes: Optimized for E.coli and B.subtilis.
mutable provenance: See data for BBa_K90401.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000155
role: partType/Plasmid
component: BBa_J04450
component: BBa_K090401
sequence annotation: BBa_K090401
sequence annotation: BBa_J04450
sequence: https://synbiohub.org/public/igem/BBa_K541800_sequence/1

BBa_J04450
type: Component
persistent identity: component2136423
display id: component2136423
version: 1
top level: BBa_K541800
access: public
definition: https://synbiohub.org/public/igem/BBa_J04450/1

BBa_K090401
type: Component
persistent identity: component2136405
display id: component2136405
version: 1
top level: BBa_K541800
access: public
definition: https://synbiohub.org/public/igem/BBa_K090401/1

BBa_K090401
type: SequenceAnnotation
persistent identity: annotation2136405
display id: annotation2136405
version: 1
top level: BBa_K541800
location: https://synbiohub.org/public/igem/BBa_K541800/annotation2136405/range2136405/1
component: BBa_K090401

https://synbiohub.org/public/igem/BBa_K541800/annotation2136405/range2136405/1
type: Range
persistent identity: range2136405
display id: range2136405
version: 1
direction: direction/reverse
top level: BBa_K541800
start: 1
end: 5208
orientation: inline

BBa_J04450
type: SequenceAnnotation
persistent identity: annotation2136423
display id: annotation2136423
version: 1
top level: BBa_K541800
location: https://synbiohub.org/public/igem/BBa_K541800/annotation2136423/range2136423/1
component: BBa_J04450

https://synbiohub.org/public/igem/BBa_K541800/annotation2136423/range2136423/1
type: Range
persistent identity: range2136423
display id: range2136423
version: 1
direction: direction/reverse
top level: BBa_K541800
start: 5217
end: 6285
orientation: inline

SinR
type: ComponentDefinition
persistent identity: BBa K1122000
display id: BBa_K1122000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: SinR transcription factor
creator: Dainius Tautvaisas
created: 2013-07-23T11:00:00Z
modified: 2015-05-08T01:09:14Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1433_
m user id: 0
owner id: 18023
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: true
mutable description: SinR protein is the master regulator of biofilm formation in Bacillus subtillis. In the active state, it represses biofilms.
mutable notes: We used an E. coli vector to accept the sequence. Designing a BioBrick compatible Bacillus subtilis vector took a lot of effort.
mutable provenance: Bacillus subtilis genomic DNA.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1122000_sequence/1

BBa_K780004
type: ComponentDefinition
persistent identity: BBa K780004
display id: BBa_K780004
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS+GFP for expression in Bacillus subtilis
creator: iGEM 2012 Warsaw Team
created: 2012-09-25T11:00:00Z
modified: 2015-05-08T01:13:18Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1034_
m user id: 0
owner id: 10113
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: It is succesfully joined B.subtilis RBS with GFP reporter protein. Can be used to measure strenght of B.subtilis promoters. In order to work with it you must first add appropriate terminator at the end. We recommend BBa_K780000 - a terminator designed for use with B.subtilis.
mutable notes: -
mutable provenance: RBS was taken from 'host-takover module' from B.subtilis Bacteriophage SPO1 and GPF is derived from jellyfish Aequeora victoria (BBa_E0040).
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_E0040
component: BBa_K780002
sequence annotation: BBa_K780002
sequence annotation: BBa_E0040
sequence: https://synbiohub.org/public/igem/BBa_K780004_sequence/1

BBa_E0040
type: Component
persistent identity: component2200426
display id: component2200426
version: 1
top level: BBa_K780004
access: public
definition: GFP

BBa_K780002
type: Component
persistent identity: component2200424
display id: component2200424
version: 1
top level: BBa_K780004
access: public
definition: R37

BBa_K780002
type: SequenceAnnotation
persistent identity: annotation2200424
display id: annotation2200424
version: 1
top level: BBa_K780004
location: https://synbiohub.org/public/igem/BBa_K780004/annotation2200424/range2200424/1
component: BBa_K780002

https://synbiohub.org/public/igem/BBa_K780004/annotation2200424/range2200424/1
type: Range
persistent identity: range2200424
display id: range2200424
version: 1
direction: direction/reverse
top level: BBa_K780004
start: 1
end: 16
orientation: inline

BBa_E0040
type: SequenceAnnotation
persistent identity: annotation2200426
display id: annotation2200426
version: 1
top level: BBa_K780004
location: https://synbiohub.org/public/igem/BBa_K780004/annotation2200426/range2200426/1
component: BBa_E0040

https://synbiohub.org/public/igem/BBa_K780004/annotation2200426/range2200426/1
type: Range
persistent identity: range2200426
display id: range2200426
version: 1
direction: direction/reverse
top level: BBa_K780004
start: 23
end: 742
orientation: inline

BBa_K1351012
type: ComponentDefinition
persistent identity: BBa K1351012
display id: BBa_K1351012
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: spaS Subtilin (antimicrobial peptide, Freiburg standard)
creator: Carolin Kobras
created: 2014-09-09T11:00:00Z
modified: 2016-01-27T02:43:09Z
discontinued: false
dominant: false
experience: experience/None
group u list: _1726_
m user id: 4206
owner id: 20398
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Subtilin Lanthionine-containing peptide antibiotic (lantibiotic) active on Gram-positive bacteria. The bactericidal activity of lantibiotics is based on depolarization of energized bacterial cytoplasmic membranes, initiated by the formation of aqueous transmembrane pores.
mutable notes: -
mutable provenance: Bacillus subtilis ATCC6633
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence: https://synbiohub.org/public/igem/BBa_K1351012_sequence/1

LipA-HE
type: ComponentDefinition
persistent identity: BBa K143035
display id: BBa_K143035
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: LipA-Human Elastin (EP20-24-24) Fusion Protein
creator: Qin Qi
created: 2008-09-17T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/None
group u list: _199_
m user id: 0
owner id: 3429
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Elastin is a polymeric extracellular matrix protein found in tissues that require the ability to extend and recoil. Examples of elastin containing tissues include arteries, lungs, ligaments and skin. Construct EP20-24-24 for human elastin polypeptide consists of distinct exons which code for alternating hydrophobic regions and crosslinking domains from the human elastin polypeptide gene 1. Under appropriate conditions of temperature and ionic strength, elastin polypeptide undergoes a self-aggregation process known as coacervation. Coacervation is usually induced by an increase in temperature and causes the protein to separate from the solution as a second phase. Unlike most proteins which undergo denaturation when the temperature of the solution increases, elastin polypeptides become more ordered through coacervation 2. LipA is a signal peptide from the B.subtilis genome. In general, signal peptides are responsible for directing preproteins (secretory proteins with a signal peptide region attached)through an appropriate secretory pathway3. LipA has been successfully used in the secretion of heterologous proteins such as cutinase by ''B. subtilis''.
mutable notes: BioBrick standard was applied to the LipA-Human Elastin(EP20-24-24) Fusion Protein.
mutable provenance: All exons in EP20-24-24 are derived from the human elastin polypeptide gene. EP20-24-24 was used to study the effect of various combinations of exons on coacervation of elastin polypeptide. LipA originated from the B. subtilis genome4. Both components were produced as a fusion protein by GeneArt.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: Human Elastin (EP20-24-24)
sequence annotation: LipA
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K143035_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation1992710
display id: annotation1992710
version: 1
top level: LipA-HE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143035/annotation1992710/range1992710/1

https://synbiohub.org/public/igem/BBa_K143035/annotation1992710/range1992710/1
type: Range
persistent identity: range1992710
display id: range1992710
version: 1
direction: direction/forward
top level: LipA-HE
start: 703
end: 705
orientation: inline

Human Elastin (EP20-24-24)
type: SequenceAnnotation
persistent identity: annotation1992708
display id: annotation1992708
version: 1
top level: LipA-HE
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143035/annotation1992708/range1992708/1

https://synbiohub.org/public/igem/BBa_K143035/annotation1992708/range1992708/1
type: Range
persistent identity: range1992708
display id: range1992708
version: 1
direction: direction/forward
top level: LipA-HE
start: 103
end: 699
orientation: inline

LipA
type: SequenceAnnotation
persistent identity: annotation1976410
display id: annotation1976410
version: 1
top level: LipA-HE
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K143035/annotation1976410/range1976410/1

https://synbiohub.org/public/igem/BBa_K143035/annotation1976410/range1976410/1
type: Range
persistent identity: range1976410
display id: range1976410
version: 1
direction: direction/forward
top level: LipA-HE
start: 1
end: 102
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation1992707
display id: annotation1992707
version: 1
top level: LipA-HE
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K143035/annotation1992707/range1992707/1

https://synbiohub.org/public/igem/BBa_K143035/annotation1992707/range1992707/1
type: Range
persistent identity: range1992707
display id: range1992707
version: 1
direction: direction/forward
top level: LipA-HE
start: 1
end: 3
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation1992709
display id: annotation1992709
version: 1
top level: LipA-HE
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K143035/annotation1992709/range1992709/1

https://synbiohub.org/public/igem/BBa_K143035/annotation1992709/range1992709/1
type: Range
persistent identity: range1992709
display id: range1992709
version: 1
direction: direction/forward
top level: LipA-HE
start: 700
end: 702
orientation: inline

BBa_K104003
type: ComponentDefinition
persistent identity: BBa K104003
display id: BBa_K104003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: RBS_spaR
creator: Anil Wipat
created: 2009-09-22T11:00:00Z
modified: 2015-06-09T08:59:51Z
discontinued: false
dominant: false
group u list: _237_
m user id: 4206
owner id: 2652
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This is the ribsome binding site for the spaR gene. spaR encodes the response regulator for the two component system encoded by the spaRK operon that senses the quorum peptide subtilin.
mutable notes: This part forms part of the complex device BBa_K104001
mutable provenance: The part comes from the sequence of the spaRK operon from Genbank entry: Bacillus subtilis spaR and spaK genes, complete coding regions, gi|143569|gb|L07785.1|BACSPARK[143569]
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000139
role: partType/RBS
sequence: https://synbiohub.org/public/igem/BBa_K104003_sequence/1

BBa_K1399008
type: ComponentDefinition
persistent identity: BBa K1399008
display id: BBa_K1399008
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: GFP (mut3b) with DAS-ssrA degradation tag
creator: Anna Stikane
created: 2014-09-18T11:00:00Z
modified: 2015-05-08T01:10:16Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _1777_
m user id: 0
owner id: 22477
owning group id: 9
sample status: In stock
status: status/Available
bookmark: true
mutable description: GFP (mut3b) (see part BBa_E0040) with added DAS-ssrA degradation tag (see part BBa_M0052). The tag increases GFP turn-over rate, thus providing better temporal resolution of green fluorescence. In the same time, maximal fluorescence amplitudes will be lower as newly formed protein is degraded as soon as it is formed. SsrA tags encode peptide sequence that is recognized by ClpA and ClpX unfoldases and ClpX mediator SspB.[1] ClpA and ClpX then form a proteosome-like complex with ClpP protease and the protein is degraded.[1] The final three residues of the tag determines the strength of interaction with ClpX and thus the final protein degradation rate.[2] The DAS tag encodes peptide sequence AANDENYADAS is reported to have low affinity to ClpX thus its mediated degradation very much depends on the concentration of SspB (ClpX mediator).[1] However, be aware that exact protein degradation rate is influenced by multiple other factors: ClpXP and ClpAP protease concentrations, protein stability, Km of binding to the protease, temperature [3]. ===References=== [1] Flynn, J. M. et al. Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc. Natl. Acad. Sci. U. S. A. 98, 10584???9 (2001). [2] Andersen, J. B. et al. New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl. Environ. Microbiol. 64, 2240???6 (1998). [3] Purcell, O., Grierson, C. S., Bernardo, M. Di & Savery, N. J. Temperature dependence of ssrA-tag mediated protein degradation. J. Biol. Eng. 6, 10 (2012).
mutable notes: The tag was attached to GFP using PCR and MABEL (mutagenesis with blunt-end ligation), thus avoiding introduction of additional residues and restriction site. Different parts of the tag are recognized by different proteins, for example, the final 3 residues (DAS in this case) are recognized by ClpX, whereas first 4 residues of the tag are required for efficient SspB binding.[1] Thus modifications of these critical residues alter the efficacy with what different proteases bind to it.
mutable provenance: GFP comes from part BBa_E0040, the tag sequence was obtained from part BBa_M0052.
owned by: james
owned by: myers
star: false
type: DnaRegion
role: partType/Coding
role: SO:0000316
sequence annotation: stop
sequence annotation: GFP (mut3b)
sequence annotation: DAS-ssrA tag
sequence annotation: start
sequence: https://synbiohub.org/public/igem/BBa_K1399008_sequence/1

stop
type: SequenceAnnotation
persistent identity: annotation2383932
display id: annotation2383932
version: 1
top level: BBa_K1399008
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399008/annotation2383932/range2383932/1

https://synbiohub.org/public/igem/BBa_K1399008/annotation2383932/range2383932/1
type: Range
persistent identity: range2383932
display id: range2383932
version: 1
direction: direction/forward
top level: BBa_K1399008
start: 751
end: 753
orientation: inline

GFP (mut3b)
type: SequenceAnnotation
persistent identity: annotation2383929
display id: annotation2383929
version: 1
top level: BBa_K1399008
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1399008/annotation2383929/range2383929/1

https://synbiohub.org/public/igem/BBa_K1399008/annotation2383929/range2383929/1
type: Range
persistent identity: range2383929
display id: range2383929
version: 1
direction: direction/forward
top level: BBa_K1399008
start: 3
end: 714
orientation: inline

DAS-ssrA tag
type: SequenceAnnotation
persistent identity: annotation2383930
display id: annotation2383930
version: 1
top level: BBa_K1399008
role: SO:0000324
role: feature/tag
location: https://synbiohub.org/public/igem/BBa_K1399008/annotation2383930/range2383930/1

https://synbiohub.org/public/igem/BBa_K1399008/annotation2383930/range2383930/1
type: Range
persistent identity: range2383930
display id: range2383930
version: 1
direction: direction/forward
top level: BBa_K1399008
start: 715
end: 747
orientation: inline

stop
type: SequenceAnnotation
persistent identity: annotation2383931
display id: annotation2383931
version: 1
top level: BBa_K1399008
role: SO:0000319
role: feature/stop
location: https://synbiohub.org/public/igem/BBa_K1399008/annotation2383931/range2383931/1

https://synbiohub.org/public/igem/BBa_K1399008/annotation2383931/range2383931/1
type: Range
persistent identity: range2383931
display id: range2383931
version: 1
direction: direction/forward
top level: BBa_K1399008
start: 748
end: 750
orientation: inline

start
type: SequenceAnnotation
persistent identity: annotation2383928
display id: annotation2383928
version: 1
top level: BBa_K1399008
role: SO:0000318
role: feature/start
location: https://synbiohub.org/public/igem/BBa_K1399008/annotation2383928/range2383928/1

https://synbiohub.org/public/igem/BBa_K1399008/annotation2383928/range2383928/1
type: Range
persistent identity: range2383928
display id: range2383928
version: 1
direction: direction/forward
top level: BBa_K1399008
start: 1
end: 3
orientation: inline

BBa_K1085045
type: ComponentDefinition
persistent identity: BBa K1085045
display id: BBa_K1085045
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Pdes-CheY
creator: Mirjam Groenewold
created: 2013-09-16T11:00:00Z
modified: 2015-06-02T12:15:47Z
discontinued: false
dominant: false
experience: experience/Issues
group u list: _1395_
m user id: 4206
owner id: 16111
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: blabla
mutable notes: BLABLA
mutable provenance: BLABLA
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
sequence annotation: cheY
sequence annotation: Promoter region des
sequence: https://synbiohub.org/public/igem/BBa_K1085045_sequence/1

cheY
type: SequenceAnnotation
persistent identity: annotation2367980
display id: annotation2367980
version: 1
top level: BBa_K1085045
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_K1085045/annotation2367980/range2367980/1

https://synbiohub.org/public/igem/BBa_K1085045/annotation2367980/range2367980/1
type: Range
persistent identity: range2367980
display id: range2367980
version: 1
direction: direction/forward
top level: BBa_K1085045
start: 298
end: 660
orientation: inline

Promoter region des
type: SequenceAnnotation
persistent identity: annotation2367955
display id: annotation2367955
version: 1
top level: BBa_K1085045
role: SO:0000167
role: feature/promoter
location: https://synbiohub.org/public/igem/BBa_K1085045/annotation2367955/range2367955/1

https://synbiohub.org/public/igem/BBa_K1085045/annotation2367955/range2367955/1
type: Range
persistent identity: range2367955
display id: range2367955
version: 1
direction: direction/forward
top level: BBa_K1085045
start: 1
end: 279
orientation: inline

BBa_K1197000
type: ComponentDefinition
persistent identity: BBa K1197000
display id: BBa_K1197000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Anti MazF - Antisense RNA to inhibit MazF activity in B.subtilis
creator: Alişan Kayab??len
created: 2013-09-19T11:00:00Z
modified: 2015-06-08T11:15:20Z
discontinued: false
dominant: false
group u list: _1511_
m user id: 4206
owner id: 12727
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Anti MazF is an antisense RNA producing sequence which is complemantary to MazF (K302033). MazF is a non-specific ribonuclease coding element which kills Bacillus subtilis. Anti MazF element produces an mRNA which is reverse complemantary to mRNA produced by MazF. Thus, Anti Mazf mRNA binds to MazF mRNA and inhibit its activity for coding MazF protein.
mutable notes: This part is designed as a complemantary sequence to the last 4 bases of the RBS sequence, 6 bases to the intermediate region and to the first 40 bases of MazF coding sequence, tottally 50 bases.
mutable provenance: It is synthesized as a reverse complementary sequence to MazF (K302033)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000834
role: partType/RNA
sequence: https://synbiohub.org/public/igem/BBa_K1197000_sequence/1

BBa_K1197003
type: ComponentDefinition
persistent identity: BBa K1197003
display id: BBa_K1197003
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: AntiMazF + Double Terminator
creator: Alişan Kayab??len
created: 2013-09-19T11:00:00Z
modified: 2015-06-08T11:16:06Z
discontinued: false
dominant: false
group u list: _1511_
m user id: 4206
owner id: 12727
owning group id: 9
sample status: In stock
status: status/Available
bookmark: false
mutable description: Anti MazF is an antisense RNA producing sequence which is complemantary to MazF (K302033). MazF is a non-specific ribonuclease coding element which kills Bacillus subtilis. Anti MazF element produces an mRNA which is reverse complemantary to mRNA produced by MazF. Thus, Anti Mazf mRNA binds to MazF mRNA and inhibit its activity for coding MazF protein. This part can be used with any promoter according to regulation mechanism.
mutable notes: Anti MazF is designed as a complemantary sequence to the last 4 bases of the RBS sequence, 6 bases to the intermediate region and to the first 40 bases of MazF coding sequence, tottally 50 bases.
mutable provenance: It is synthesized as a reverse complementary sequence to MazF (K302033)
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Composite
component: BBa_K1197000
component: BBa_B0015
sequence annotation: BBa_K1197000
sequence annotation: BBa_B0015
sequence: https://synbiohub.org/public/igem/BBa_K1197003_sequence/1

BBa_K1197000
type: Component
persistent identity: component2357088
display id: component2357088
version: 1
top level: BBa_K1197003
access: public
definition: BBa_K1197000

BBa_B0015
type: Component
persistent identity: component2357095
display id: component2357095
version: 1
top level: BBa_K1197003
access: public
definition: https://synbiohub.org/public/igem/BBa_B0015/1

BBa_K1197000
type: SequenceAnnotation
persistent identity: annotation2357088
display id: annotation2357088
version: 1
top level: BBa_K1197003
location: https://synbiohub.org/public/igem/BBa_K1197003/annotation2357088/range2357088/1
component: BBa_K1197000

https://synbiohub.org/public/igem/BBa_K1197003/annotation2357088/range2357088/1
type: Range
persistent identity: range2357088
display id: range2357088
version: 1
direction: direction/reverse
top level: BBa_K1197003
start: 1
end: 50
orientation: inline

BBa_B0015
type: SequenceAnnotation
persistent identity: annotation2357095
display id: annotation2357095
version: 1
top level: BBa_K1197003
location: https://synbiohub.org/public/igem/BBa_K1197003/annotation2357095/range2357095/1
component: BBa_B0015

https://synbiohub.org/public/igem/BBa_K1197003/annotation2357095/range2357095/1
type: Range
persistent identity: range2357095
display id: range2357095
version: 1
direction: direction/reverse
top level: BBa_K1197003
start: 59
end: 187
orientation: inline

BBa_J179000
type: ComponentDefinition
persistent identity: BBa J179000
display id: BBa_J179000
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: pBS1C: Bacillus subtilis vector, amyE integration, CAM-resistance
creator: Jara Radeck
created: 2013-12-03T12:00:00Z
modified: 2015-08-31T04:08:35Z
discontinued: false
dominant: false
experience: experience/None
group u list: _865_
m user id: 0
owner id: 6378
owning group id: 9
sample status: Not in stock
status: status/Unavailable
bookmark: false
mutable description: This vector integrates into the amyE-site of Bacillus subtilis via double recombination. The two recombination sites flank a standard BioBrick multiple cloning site (with RFP-cassette), as well as a chloramphenicol resistance cassette (5 ??g/ml). The backbone does not contain the restriction sites EcoRI, XbaI, SpeI, PstI, NgoMIV nor AgeI. The vector is replicative in Escherichia coli and provides resistance to ampicillin (100 ??g/ml). Before transformation into B. subtilis, this vector should be linearized with ScaI.
mutable notes: This is one of three empty vectors with compatible integration loci and resistance cassettes to allow combination of up to three constructs of choice in one single strain.
mutable provenance: pDG1731
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000755
role: partType/Plasmid Backbone
sequence annotation: bla
sequence annotation: amyE-back
sequence annotation: ori
sequence annotation: amyE-front
sequence annotation: cat
sequence: https://synbiohub.org/public/igem/BBa_J179000_sequence/1

bla
type: SequenceAnnotation
persistent identity: annotation2371575
display id: annotation2371575
version: 1
top level: BBa_J179000
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179000/annotation2371575/range2371575/1

https://synbiohub.org/public/igem/BBa_J179000/annotation2371575/range2371575/1
type: Range
persistent identity: range2371575
display id: range2371575
version: 1
direction: direction/reverse
top level: BBa_J179000
start: 4361
end: 5221
orientation: inline

amyE-back
type: SequenceAnnotation
persistent identity: annotation2371574
display id: annotation2371574
version: 1
top level: BBa_J179000
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179000/annotation2371574/range2371574/1

https://synbiohub.org/public/igem/BBa_J179000/annotation2371574/range2371574/1
type: Range
persistent identity: range2371574
display id: range2371574
version: 1
direction: direction/forward
top level: BBa_J179000
start: 1379
end: 2407
orientation: inline

ori
type: SequenceAnnotation
persistent identity: annotation2371577
display id: annotation2371577
version: 1
top level: BBa_J179000
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179000/annotation2371577/range2371577/1

https://synbiohub.org/public/igem/BBa_J179000/annotation2371577/range2371577/1
type: Range
persistent identity: range2371577
display id: range2371577
version: 1
direction: direction/forward
top level: BBa_J179000
start: 3587
end: 4201
orientation: inline

amyE-front
type: SequenceAnnotation
persistent identity: annotation2371576
display id: annotation2371576
version: 1
top level: BBa_J179000
role: SO:0000110
role: feature/misc
location: https://synbiohub.org/public/igem/BBa_J179000/annotation2371576/range2371576/1

https://synbiohub.org/public/igem/BBa_J179000/annotation2371576/range2371576/1
type: Range
persistent identity: range2371576
display id: range2371576
version: 1
direction: direction/forward
top level: BBa_J179000
start: 5546
end: 6066
orientation: inline

cat
type: SequenceAnnotation
persistent identity: annotation2371573
display id: annotation2371573
version: 1
top level: BBa_J179000
role: feature/cds
role: SO:0000316
location: https://synbiohub.org/public/igem/BBa_J179000/annotation2371573/range2371573/1

https://synbiohub.org/public/igem/BBa_J179000/annotation2371573/range2371573/1
type: Range
persistent identity: range2371573
display id: range2371573
version: 1
direction: direction/forward
top level: BBa_J179000
start: 358
end: 1008
orientation: inline

Ph-s-spoVG
type: ComponentDefinition
persistent identity: BBa K143055
display id: BBa_K143055
version: 1
was generated by: https://synbiohub.org/public/igem/igem2sbol/1
description: Promoter hyper-spank and RBS spoVG for B. subtilis
creator: Chris Hirst
created: 2008-10-07T11:00:00Z
modified: 2015-05-08T01:10:24Z
discontinued: false
dominant: false
experience: experience/Works
group u list: _199_
m user id: 0
owner id: 3475
owning group id: 9
sample status: It's complicated
status: status/Planning
bookmark: false
mutable description: Inducible promoter hyper-spank( BBa_K143015 ) coupled to the strong Ribosome Binding Site spoVG( BBa_K143021 ) from ''B. subtilis''. Phyperspank-spoVG can be used to take an input of IPTG and give a '''Ribosomes per second''' (RiPS) output generator. IPTG does not directly induce the expression of the promoter hyper-spank, but requires the transcriptional regulator '''LacI''', ( BBa_K143033 ). This means that LacI must be constitutively expressed in ''B.subtilis'' in order to use the promoter hyper-spank as an inducible promoter. '''To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix1. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.'''
mutable notes: The sequence of promoter hyperspank was obtained from the ''B. subtilis'' integration vector pDR111 and RBS-spoVG were obtained from papers1 and the sequence synthesised by GeneArt
mutable provenance: Phyperspank-spoVG was synthesised by GeneArt
owned by: james
owned by: myers
star: false
type: DnaRegion
role: SO:0000804
role: partType/Generator
component: BBa_K143015
component: BBa_K143021
sequence annotation: BBa_K143015
sequence annotation: BBa_K143021
sequence: https://synbiohub.org/public/igem/BBa_K143055_sequence/1

BBa_K143015
type: Component
persistent identity: component1992693
display id: component1992693
version: 1
top level: Ph-s-spoVG
access: public
definition: Ph-s

BBa_K143021
type: Component
persistent identity: component1992695
display id: component1992695
version: 1
top level: Ph-s-spoVG
access: public
definition: RBS-spoVG

BBa_K143015
type: SequenceAnnotation
persistent identity: annotation1992693
display id: annotation1992693
version: 1
top level: Ph-s-spoVG
location: https://synbiohub.org/public/igem/BBa_K143055/annotation1992693/range1992693/1
component: BBa_K143015

https://synbiohub.org/public/igem/BBa_K143055/annotation1992693/range1992693/1
type: Range
persistent identity: range1992693
display id: range1992693
version: 1
direction: direction/reverse
top level: Ph-s-spoVG
start: 1
end: 101
orientation: inline

BBa_K143021
type: SequenceAnnotation
persistent identity: annotation1992695
display id: annotation1992695
version: 1
top level: Ph-s-spoVG
location: https://synbiohub.org/public/igem/BBa_K143055/annotation1992695/range1992695/1
component: BBa_K143021

https://synbiohub.org/public/igem/BBa_K143055/annotation1992695/range1992695/1
type: Range
persistent identity: range1992695
display id: range1992695
version: 1
direction: direction/reverse
top level: Ph-s-spoVG
start: 110
end: 121
orientation: inline