Difference between revisions of "SwrB"

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* '''Description:''' control of [[SigD]] activity <br/><br/>
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* '''Description:''' control of [[SigD]] activity, required for full [[SigD]] activity, activates the flagellar type III secretion export apparatus by the membrane protein [[FliP]] <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
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|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[SigD]] activity
 
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[SigD]] activity
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16480 swrB]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 4.417   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 4.417   
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sigD]]'', ''[[rpsB]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sigD]]'', ''[[rpsB]]''
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13521&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16480 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16480 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16480 DNA_with_flanks]
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ylxL_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ylxL_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylxL_1717286_1717789_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:swrB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16480]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/>
  
−
<br/><br/>
+
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[sigma factors and their control]]}},
 +
{{SubtiWiki category|[[motility and chemotaxis]]}}
 +
 
 +
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[CodY regulon]]}},
 +
{{SubtiWiki regulon|[[DegU regulon]]}},
 +
{{SubtiWiki regulon|[[SigD regulon]]}},
 +
{{SubtiWiki regulon|[[Spo0A regulon]]}}
  
 
=The gene=
 
=The gene=
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
+
* no swarming motility on B medium [http://www.ncbi.nlm.nih.gov/sites/entrez/19202088 PubMed]
−
No swarming motility on B medium. [http://www.ncbi.nlm.nih.gov/sites/entrez/19202088 PubMed]
+
* defective in the assembly of the flagellar hook {{PubMed|26244495}}
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16480&redirect=T BSU16480]
  
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fla-che.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fla-che.html]
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=== Additional information===
 
=== Additional information===
−
Novel designation (swrB) according to Kearns et al., 2004 {{PubMed|15066026}}
 
  
 
=The protein=
 
=The protein=
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''  
  
−
* '''Localization:''' Membrane-proximal (Spotty) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
+
* '''[[Localization]]:'''  
 +
** membrane-proximal (Spotty) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
 +
** membrane {{PubMed|26244495}}
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16480&redirect=T BSU16480]
  
 
* '''Structure:'''
 
* '''Structure:'''
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=Expression and regulation=
 
=Expression and regulation=
 +
* '''Operon:''' part of the [[fla-che operon]]
 +
** ''[[flgB]]-[[flgC]]-[[fliE]]-[[fliF]]-[[fliG]]-[[fliH]]-[[fliI]]-[[fliJ]]-[[ylxF]]-[[fliK]]-[[flgD]]-[[flgE]]-[[fliL]]-[[fliM]]-[[fliY]]-[[cheY]]-[[fliZ]]-[[fliP]]-[[fliQ]]-[[fliR]]-[[flhB]]-[[flhA]]-[[flhF]]-[[flhG]]-[[cheB]]-[[cheA]]-[[cheW]]-[[cheC]]-[[cheD]]-[[sigD]]-[[swrB]]'' {{PubMed|9657996,8157612,15175317}}
 +
** ''[[ylxF]]-[[fliK]]-[[flgD]]-[[flgE]]-[[fliL]]-[[fliM]]-[[fliY]]-[[cheY]]-[[fliZ]]-[[fliP]]-[[fliQ]]-[[fliR]]-[[flhB]]-[[flhA]]-[[flhF]]-[[flhG]]-[[cheB]]-[[cheA]]-[[cheW]]-[[cheC]]-[[cheD]]-[[sigD]]-[[swrB]]'' {{PubMed|20233303}}
 +
** ''[[sigD]]-[[swrB]]'' {{PubMed|9335309}}
  
−
** ''[[flgB]]-[[flgC]]-[[fliE]]-[[fliF]]-[[fliG]]-[[fliH]]-[[fliI]]-[[fliJ]]-[[ylxF]]-[[fliK]]-[[ylxG]]-[[flgE]]-[[fliL]]-[[fliM]]-[[fliY]]-[[cheY]]-[[fliZ]]-[[fliP]]-[[fliQ]]-[[fliR]]-[[flhB]]-[[flhA]]-[[flhF]]-[[ylxH]]-[[cheB]]-[[cheA]]-[[cheW]]-[[cheC]]-[[cheD]]-[[sigD]]-[[swrB]]'' {{PubMed|9657996,8157612,15175317}}
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylxL_1717286_1717789_1 swrB] {{PubMed|22383849}}
−
** ''[[sigD]]-[[swrB]]'' {{PubMed|9335309}}
 
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
 
** ''[[flgB]]'': [[SigA]] {{PubMed|9657996}}, [[SigD]] {{PubMed|9657996}}
 
** ''[[flgB]]'': [[SigA]] {{PubMed|9657996}}, [[SigD]] {{PubMed|9657996}}
 +
** ''[[ylxF]]'': [[SigD]] {{PubMed|20233303}}
 
** ''[[sigD]]'': [[SigA]] {{PubMed|9335309}}
 
** ''[[sigD]]'': [[SigA]] {{PubMed|9335309}}
  
−
* '''Regulation:'''  
+
* '''Regulation:''' see [[fla-che operon]]
−
** ''[[flgB]]'' promoter: repressed under conditions that trigger sporulation ([[Spo0A]]) {{PubMed|14651647}}
 
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' see [[fla-che operon]]
−
** [[Spo0A]]: transcription repression {{PubMed|14651647}}
 
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
−
 
+
<pubmed>15175317,19202088,16357223,15066026,9335309,14651647, 16479537, 19202088  9657996,8157612, 17850253 24386445 22329926 26244495</pubmed>
−
<pubmed>15175317,19202088,16357223,15066026,9335309,14651647, 16479537, 19202088  9657996,8157612,</pubmed>
 
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Latest revision as of 11:48, 6 August 2015

  • Description: control of SigD activity, required for full SigD activity, activates the flagellar type III secretion export apparatus by the membrane protein FliP

Gene name swrB
Synonyms ylxL
Essential no
Product unknown
Function control of SigD activity
Gene expression levels in SubtiExpress: swrB
MW, pI 18 kDa, 4.417
Gene length, protein length 501 bp, 167 aa
Immediate neighbours sigD, rpsB
Sequences Protein DNA DNA_with_flanks
Genetic context
YlxL context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
SwrB expression.png















Categories containing this gene/protein

sigma factors and their control, motility and chemotaxis

This gene is a member of the following regulons

CodY regulon, DegU regulon, SigD regulon, Spo0A regulon

The gene

Basic information

  • Locus tag: BSU16480

Phenotypes of a mutant

  • no swarming motility on B medium PubMed
  • defective in the assembly of the flagellar hook PubMed

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

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