Difference between revisions of "Sandbox"

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−
* '''Description:''' single-strand DNA-binding protein <br/><br/>
+
* '''Description:''' component of the TatAdCd twin-arginine translocase<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'''
−
|''ssb''
+
|''tatAD''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yczB ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || single-strand DNA-binding protein
+
|style="background:#ABCDEF;" align="center"| '''Product''' || component of the twin-arginine <br>translocation pathway
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || DNA replication, recombination, repair
+
|style="background:#ABCDEF;" align="center"|'''Function''' || protein secretion
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 4.822  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 7 kDa, 9.693  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 516 bp, 172 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 210 bp, 70 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpsR]]'', ''[[rpsF]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[phoD]]'', ''[[tatCD]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16127&#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:CAB12057&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:ssb_context.gif]]
+
|-
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:tatAD_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>
 
|-
 
|-
Line 29: Line 31:
 
__TOC__
 
__TOC__
  
−
<br/><br/>
+
<br/><br/><br/><br/>
  
 
=The gene=
 
=The gene=
Line 35: Line 37:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU40900
+
* '''Locus tag:''' BSU02630
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
−
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yyaF-rpsF-ssb-rpsR.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10048]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12777]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 54:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' translocation of [[PhoD]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19395490 PubMed]
  
−
* '''Protein family:'''
+
* '''Protein family:''' tatA/E family (according to Swiss-Prot)
  
−
* '''Paralogous protein(s):''' [[YwpH]]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 66: Line 66:
 
* '''Domains:'''  
 
* '''Domains:'''  
  
−
* '''Modification:''' phosphorylated on Tyr-82 by [[PtkA]], dephosphorylated by [[PtpZ]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16549871 PubMed]
+
* '''Modification:'''
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' Phosphorylation of Ssb increases binding to single-stranded DNA in vitro almost 200-fold [http://www.ncbi.nlm.nih.gov/sites/entrez/16549871 PubMed]
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' [[TatAD]]-[[PhoD]],  [[TatAD]]-[[TatCD]], [[TatAD]]-[[TatCY]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19395490 PubMed]
  
−
* '''Localization:''' Nucleoid (Mid-cell) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
+
* '''Localization:''' membrane (according to Swiss-Prot),  forms foci at the division sites and cell poles, localization requires interaction with [[TatCD]] or [[TatCY]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19395490 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
Line 80: Line 80:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P37455 P37455]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O31467 O31467]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU40900]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU02630]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 115: Line 115:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Oscar Kuipers]], University of Groningen, The Netherlands
 +
[http://molgen.biol.rug.nl/molgen/index.php Homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
<pubmed>16479537, 16549871 </pubmed>
+
<pubmed> 19395490 </pubmed>
−
 
 
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 19:14, 7 June 2009

  • Description: component of the TatAdCd twin-arginine translocase

Gene name tatAD
Synonyms yczB
Essential no
Product component of the twin-arginine
translocation pathway
Function protein secretion
MW, pI 7 kDa, 9.693
Gene length, protein length 210 bp, 70 aa
Immediate neighbours phoD, tatCD
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
TatAD context.gif
This image was kindly provided by SubtiList





The gene

Basic information

  • Locus tag: BSU02630

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: translocation of PhoD PubMed
  • Protein family: tatA/E family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization: membrane (according to Swiss-Prot), forms foci at the division sites and cell poles, localization requires interaction with TatCD or TatCY PubMed

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Oscar Kuipers, University of Groningen, The Netherlands Homepage

Your additional remarks

References

Anja N J A Ridder, Esther J de Jong, Jan D H Jongbloed, Oscar P Kuipers
Subcellular localization of TatAd of Bacillus subtilis depends on the presence of TatCd or TatCy.
J Bacteriol: 2009, 191(13);4410-8
[PubMed:19395490] [WorldCat.org] [DOI] (I p)

  1. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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