Difference between revisions of "Sandbox"

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−
* '''Description:''' two-component response regulator, control of cellular responses to protein secretion stress <br/><br/>
+
* '''Description:''' serine protease Do (heat-shock protein) <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'''
−
|''cssR''
+
|''htrA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvqA ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykdA ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component response regulator
+
|style="background:#ABCDEF;" align="center"| '''Product''' || serine protease Do (heat-shock protein)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of cellular responses to protein secretion stress
+
|style="background:#ABCDEF;" align="center"|'''Function''' || probably involved in processing, maturation, or secretion of extracellular enzymes
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 5.071  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 4.699  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 675 bp, 225 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1347 bp, 449 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[htrB]]'', ''[[cssS]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykcC]]'', ''[[proG]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15291&#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:CAB13147&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:cssR_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>
 
|-
 
|-
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU33010
+
* '''Locus tag:''' BSU12900
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 43:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cssRS.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/htrA.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14131]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12608]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 56:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' OmpR family of two-component response regulators
+
* '''Protein family:''' PDZ (DHR) domain (according to Swiss-Prot)
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[YyxA]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 72: Line 74:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''Localization:''' cell membrane (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
Line 78: Line 80:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O32192 O32192]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O34358 O34358]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU33010]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU12900]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 118: Line 120:
 
=References=
 
=References=
  
−
<pubmed>2,9,5,6,3,1,9,1, </pubmed>
+
<pubmed>5,3,1,0,5,8,2,1, </pubmed>
−
# Darmon E, Noone D, Masson A, Bron S, Kuipers OP, Devine KM, van Dijl JM. (2002) A novel class of heat and secretion stress-responsive genes is controlled by the autoregulated CssRS two-component system of Bacillus subtilis. ''J Bacteriol. '' '''184(20):''' 5661-71. [http://www.ncbi.nlm.nih.gov/sites/entrez/12270824 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]
−
# Hyyryläinen HL, Bolhuis A, Darmon E, Muukkonen L, Koski P, Vitikainen M, Sarvas M, Prágai Z, Bron S, van Dijl JM, Kontinen VP. (2001) A novel two-component regulatory system in Bacillus subtilis for the survival of severe secretion stress. ''Mol Microbiol. '' '''41(5):''' 1159-72. [http://www.ncbi.nlm.nih.gov/sites/entrez/11555295 PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 12:46, 8 June 2009

  • Description: serine protease Do (heat-shock protein)

Gene name htrA
Synonyms ykdA
Essential no
Product serine protease Do (heat-shock protein)
Function probably involved in processing, maturation, or secretion of extracellular enzymes
MW, pI 47 kDa, 4.699
Gene length, protein length 1347 bp, 449 aa
Immediate neighbours ykcC, proG
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
HtrA context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU12900

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: PDZ (DHR) domain (according to Swiss-Prot)
  • Paralogous protein(s): YyxA

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]
  • 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

W A Hendrickson, K B Ward
Atomic models for the polypeptide backbones of myohemerythrin and hemerythrin.
Biochem Biophys Res Commun: 1975, 66(4);1349-56
[PubMed:5] [WorldCat.org] [DOI] (I p)

R J Smith, R G Bryant
Metal substitutions incarbonic anhydrase: a halide ion probe study.
Biochem Biophys Res Commun: 1975, 66(4);1281-6
[PubMed:3] [WorldCat.org] [DOI] (P p)

K S Bose, R H Sarma
Delineation of the intimate details of the backbone conformation of pyridine nucleotide coenzymes in aqueous solution.
Biochem Biophys Res Commun: 1975, 66(4);1173-9
[PubMed:2] [WorldCat.org] [DOI] (I p)

K Moroi, T Sato
Comparison between procaine and isocarboxazid metabolism in vitro by a liver microsomal amidase-esterase.
Biochem Pharmacol: 1975, 24(16);1517-21
[PubMed:8] [WorldCat.org] [DOI] (I p)

A B Makar, K E McMartin, M Palese, T R Tephly
Formate assay in body fluids: application in methanol poisoning.
Biochem Med: 1975, 13(2);117-26
[PubMed:1] [WorldCat.org] [DOI] (P p)

  1. Voigt et al. (2009) Cell physiology and protein secretion of Bacillus licheniformis compared to Bacillus subtilis. J Mol Microbiol Biotechnol. 16: 53-68 PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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