Difference between revisions of "Sandbox"

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−
* '''Description:''' ABC transporter (resistance), permease <br/><br/>
+
* '''Description:''' zinc transporter<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'''
−
|''yydI''
+
|''zosA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykvW''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || ABC transporter (resistance), permease
+
|style="background:#ABCDEF;" align="center"| '''Product''' || P-type zinc-transporting ATPase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of LiaRS activity
+
|style="background:#ABCDEF;" align="center"|'''Function''' || zinc uptake
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 8.387  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 68 kDa, 4.934  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 627 bp, 209 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1911 bp, 637 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yydJ]]'', ''[[yydH]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[stoA]]'', ''[[ykvY]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16052&#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:CAB13258&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yydI_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ykvW_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 35: Line 35:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU40150
+
* '''Locus tag:''' BSU13850
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 43: Line 43:
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11482]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13325]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' ATP + H<sub>2</sub>O + Zn<sup>2+</sup>(In) = ADP + phosphate + Zn<sup>2+</sup>(Out) (according to Swiss-Prot) P-type zinc-transporting ATPase [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 PubMed]
  
−
* '''Protein family:'''
+
* '''Protein family:''' Type IB subfamily (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 72: Line 72:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:'''
+
* '''Localization:''' cell membrane (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
Line 78: Line 78:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O31688 O31688]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU40150]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13850]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.6.3.5 3.6.3.5]
  
 
=== Additional information===
 
=== Additional information===
Line 88: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[yydF]]-[[yydG]]-[[yydH]]-[[yydI]]-[[yydJ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/17921301 PubMed]
+
* '''Operon:''' ''zosA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 PubMed]
  
−
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17921301 PubMed]
+
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 PubMed]
  
−
* '''Regulation:''' activated after transition to stationary phase([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/17921301 PubMed]
+
* '''Regulation:''' induced by hydrogen peroxide ([[PerR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 PubMed]
  
−
* '''Regulatory mechanism:''' [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/17921301 PubMed]
+
* '''Regulatory mechanism:''' [[PerR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 PubMed]
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
Line 118: Line 118:
 
=References=
 
=References=
  
−
<pubmed>17921301, </pubmed>
+
<pubmed>12180919, </pubmed>
−
# Butcher BG, Lin YP, Helmann JD (2007) The ''yydFGHIJ'' operon of ''Bacillus subtilis'' encodes a peptide that induces the LiaRS two-component system''J. Bacteriol'' '''189:''' 8616-8625. [http://www.ncbi.nlm.nih.gov/sites/entrez/17921301 PubMed]
+
# Gaballa, A.and Helmann, J. D. (2002) A peroxide-induced zinc uptake system plays an important role in protection against oxidative stress in ''Bacillus subtilis''. ''Mol. Microbiol.'' '''45:''' 997-1005. [http://www.ncbi.nlm.nih.gov/sites/entrez/12180919 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 13:55, 8 June 2009

  • Description: zinc transporter

Gene name zosA
Synonyms ykvW
Essential no
Product P-type zinc-transporting ATPase
Function zinc uptake
MW, pI 68 kDa, 4.934
Gene length, protein length 1911 bp, 637 aa
Immediate neighbours stoA, ykvY
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YkvW context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU13850

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: ATP + H2O + Zn2+(In) = ADP + phosphate + Zn2+(Out) (according to Swiss-Prot) P-type zinc-transporting ATPase PubMed
  • Protein family: Type IB subfamily (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:
  • KEGG entry: [2]

Additional information

Expression and regulation

  • Regulation: induced by hydrogen peroxide (PerR) PubMed
  • Regulatory mechanism: PerR: transcription repression 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

Ahmed Gaballa, John D Helmann
A peroxide-induced zinc uptake system plays an important role in protection against oxidative stress in Bacillus subtilis.
Mol Microbiol: 2002, 45(4);997-1005
[PubMed:12180919] [WorldCat.org] [DOI] (P p)

  1. Gaballa, A.and Helmann, J. D. (2002) A peroxide-induced zinc uptake system plays an important role in protection against oxidative stress in Bacillus subtilis. Mol. Microbiol. 45: 997-1005. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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