Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 1: Line 1:
* '''Description:''' serine protease Do (heat-shock protein) <br/><br/>
+
* '''Description:''' serine protease, response to secretion and heat stresses <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'''
|''htrA''
+
|''htrB''
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykdA ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvtA, yvtB''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || serine protease Do (heat-shock protein)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || serine protease  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || probably involved in processing, maturation, or secretion of extracellular enzymes
+
|style="background:#ABCDEF;" align="center"|'''Function''' || response to secretion and heat stresses
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 4.699  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 48 kDa, 4.632  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1347 bp, 449 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1374 bp, 458 aa  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykcC]]'', ''[[proG]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mrgA]]'', ''[[cssR]]''
 
|-
 
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13147&#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:CAB15290&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
|-
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yvtA_context.gif]]
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:htrA_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 43: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/htrA.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yvtA.html]
  
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12608]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14155]
  
 
=== Additional information===
 
=== Additional information===
Line 56: Line 54:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
* '''Protein family:''' PDZ (DHR) domain (according to Swiss-Prot)
+
* '''Protein family:''' peptidase S1B family (according to Swiss-Prot)
  
* '''Paralogous protein(s):''' [[YyxA]]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 74: Line 72:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
* '''Localization:''' cell membrane (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
+
* '''Localization:''' cell membrane (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
Line 80: Line 78:
 
* '''Structure:'''
 
* '''Structure:'''
  
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O34358 O34358]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/Q9R9I1 Q9R9I1]
  
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU12900 BSU12900]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU33000 BSU33000]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 121: Line 119:
  
 
Test.
 
Test.
<pubmed> 12850135</pubmed>
+
<pubmed> Damon et al., 2002</pubmed>
  
  
# Voigt et al. (2009) Cell physiology and protein secretion of ''Bacillus licheniformis'' compared to ''Bacillus subtilis''. ''J Mol Microbiol Biotechnol.'' '''16:''' 53-68 [http://www.ncbi.nlm.nih.gov/pubmed/18957862 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 02:09, 23 May 2009

  • Description: serine protease, response to secretion and heat stresses

Gene name htrB
Synonyms yvtA, yvtB
Essential no
Product serine protease
Function response to secretion and heat stresses
MW, pI 48 kDa, 4.632
Gene length, protein length 1374 bp, 458 aa
Immediate neighbours mrgA, cssR
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YvtA context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

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: peptidase S1B family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cell membrane (according to Swiss-Prot)

Database entries

  • Structure:
  • 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

Your additional remarks

References

Test.

David A Levitsky
Commentary on the paper of Damon et al. (December 2002).
J Nutr: 2003, 133(3);661-2
[PubMed:12612133] [WorldCat.org] [DOI] (P p)


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