Difference between revisions of "Sandbox"

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−
* '''Description:''' DNA transport machinery <br/><br/>
+
* '''Description:''' spore coat protein (insoluble fraction) <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''comGB''
+
|''cotX''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || DNA transport machinery
+
|style="background:#ABCDEF;" align="center"| '''Product''' || spore coat protein (insoluble fraction)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || competence, DNA uptake
+
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance of the spore
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 36 kDa, 8.654  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 4.228  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 969 bp, 323 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 516 bp, 172 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comGC]]'', ''[[comGA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[cotY]]'', ''[[cotW]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14403&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13033&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:comGB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:cotX_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>
 
|-
 
|-
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU24720
+
* '''Locus tag:''' BSU11760
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comGABCDEFG-yqzE.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cotVWX.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10484]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10500]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 54:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' GSP F family (according to Swiss-Prot)
+
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 72: Line 72:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cell surface (according to Swiss-Prot)
+
* '''Localization:''' spore wall (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P25954 P25954]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/Q08313 Q08313]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU24720]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU11760]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[comGA]]-[[comGB]]-[[comGC]]-[[comGD]]-[[comGE]]-[[comGF]]-[[comGG]]'' [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
+
* '''Operon:''' ''[[cotV]]-[[cotW]]-[[cotX]]'' [http://www.ncbi.nlm.nih.gov/pubmed/7519271 PubMed]
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
''cotX'' [http://www.ncbi.nlm.nih.gov/pubmed/7519271 PubMed]
 +
 
 +
* '''[[Sigma factor]]:''' before ''[[cotV]]'': [[SigK]] [http://www.ncbi.nlm.nih.gov/pubmed/7519271 PubMed]
 +
 
 +
before ''[[cotX]]'': [[SigK]] [http://www.ncbi.nlm.nih.gov/pubmed/7519271 PubMed]
  
 
* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]   
 
* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]   
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' upstream of ''[[cotX]]'': [[SpoIIID]]: repression [http://www.ncbi.nlm.nih.gov/pubmed/10788508 PubMed], upstream of both promoters: [[GerE]]: transcription activation [http://www.ncbi.nlm.nih.gov/pubmed/7519271 PubMed]
  
 
* '''Additional information:'''
 
* '''Additional information:'''

Revision as of 14:00, 8 June 2009

  • Description: spore coat protein (insoluble fraction)

Gene name cotX
Synonyms
Essential no
Product spore coat protein (insoluble fraction)
Function resistance of the spore
MW, pI 18 kDa, 4.228
Gene length, protein length 516 bp, 172 aa
Immediate neighbours cotY, cotW
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
CotX context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU11760

Phenotypes of a mutant

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:
  • Interactions:
  • Localization: spore wall (according to Swiss-Prot)

Database entries

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

Additional information

Expression and regulation

cotX PubMed

before cotX: SigK PubMed

  • Regulation: repressed by casamino acids PubMed
  • 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

Ulrike Mäder, Georg Homuth, Christian Scharf, Knut Büttner, Rüdiger Bode, Michael Hecker
Transcriptome and proteome analysis of Bacillus subtilis gene expression modulated by amino acid availability.
J Bacteriol: 2002, 184(15);4288-95
[PubMed:12107147] [WorldCat.org] [DOI] (P p)

  1. Mäder et al. (2002) Transcriptome and Proteome Analysis of Bacillus subtilis Gene Expression Modulated by Amino Acid Availability. J. Bacteriol 184: 1844288-4295 PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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