Difference between revisions of "Sandbox"

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−
* '''Description:''' pleiotropic regulator of sulphur metabolism <br/><br/>
+
* '''Description:''' phosphoadenosine phosphosulfate sulfotransferase <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'''
−
|''cymR ''
+
|''cysH''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yrzC''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor
+
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphoadenosine phosphosulfate sulfotransferase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of sulphur metabolism
+
|style="background:#ABCDEF;" align="center"|'''Function''' || sulfate reduction
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 9.879  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 5.462  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 699 bp, 233 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yrvO]]'', ''[[yrvN]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pyrE]]'', ''[[cysP]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14694&#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:CAB13431&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yrzC_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:cysH_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:''' BSU27520
+
* '''Locus tag:''' BSU15570
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cymR-yrvO-trmU.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cysHP-sat-cysC-ylnDEF.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13813]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11930]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' Adenosine 3',5'-bisphosphate + sulfite + thioredoxin disulfide = 3'-phosphoadenylyl sulfate + thioredoxin (according to Swiss-Prot)
  
−
* '''Protein family:''' Rrf2 family of transcription regulators
+
* '''Protein family:''' CysH subfamily (according to Swiss-Prot)
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[YitB]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 66: Line 66:
 
* '''Modification:'''
 
* '''Modification:'''
  
−
* '''Cofactor(s):''' [[CysK]] acts as corepressor [http://www.ncbi.nlm.nih.gov/sites/entrez/18974048 PubMed]
+
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:'''  
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[CymR]]-[[CysK]], the complex is formed in the presence of cysteine, and results in DNA binding and repression of genes of cysteine biosynthesis [http://www.ncbi.nlm.nih.gov/sites/entrez/18974048 PubMed]
+
* '''Interactions:'''
  
 
* '''Localization:''' cytoplasm (according to Swiss-Prot)
 
* '''Localization:''' cytoplasm (according to Swiss-Prot)
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O34527 O34527]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P94498 P94498]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27520]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU15570]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.8.4.8 1.8.4.8]
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[cymR]]-[[yrvO]]-[[trmU]]''
+
* '''Operon:''' ''[[cysH]]-[[cysP]]-[[sat]]-[[cysC]]-[[ylnD]]-[[ylnE]]-[[ylnF]]''
  
 
* '''[[Sigma factor]]:''' [[SigA]]
 
* '''[[Sigma factor]]:''' [[SigA]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
 +
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
 +
** repressed in the presence of cysteine ([[CymR]])
 +
** induced by methionine starvation ([[S-box]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/10094622 PubMed]
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
 +
** [[S-box]]: transcription termination/ antitermination, the [[S-box]] [[riboswitch]] binds S-adenosylmethionine resulting in termination [http://www.ncbi.nlm.nih.gov/sites/entrez/10094622 PubMed]
 +
** [[CymR]]: transcription repression
  
 
* '''Additional information:'''
 
* '''Additional information:'''
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=References=
 
=References=
  
−
<pubmed>18974048 16513748, </pubmed>
+
<pubmed>12107147, </pubmed>
−
# Tanous et al. (2008) The CymR regulator in complex with the enzyme CysK controls cysteine metabolism in ''Bacillus subtilis''.''J. Biol. Chem.'' '''283:''' 35551-35560. [http://www.ncbi.nlm.nih.gov/sites/entrez/18974048 PubMed]
+
# M&#228;der et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
−
# Even S., Burguiere P., Auger S., Soutourina O., Danchin A., Martin-Verstraete I. (2006) Global control of cysteine metabolism by CymR in Bacillus subtilis. ''J. Bacteriol'' '''188:''' 2184-2197  [http://www.ncbi.nlm.nih.gov/sites/entrez/16513748 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 13:14, 8 June 2009

  • Description: phosphoadenosine phosphosulfate sulfotransferase

Gene name cysH
Synonyms
Essential no
Product phosphoadenosine phosphosulfate sulfotransferase
Function sulfate reduction
MW, pI 26 kDa, 5.462
Gene length, protein length 699 bp, 233 aa
Immediate neighbours pyrE, cysP
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
CysH context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU15570

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: Adenosine 3',5'-bisphosphate + sulfite + thioredoxin disulfide = 3'-phosphoadenylyl sulfate + thioredoxin (according to Swiss-Prot)
  • Protein family: CysH subfamily (according to Swiss-Prot)
  • Paralogous protein(s): YitB

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]

Additional information

Expression and regulation

  • Regulation:
    • repressed by casamino acids PubMed
    • repressed in the presence of cysteine (CymR)
    • induced by methionine starvation (S-box) PubMed
  • Regulatory mechanism:
    • S-box: transcription termination/ antitermination, the S-box riboswitch binds S-adenosylmethionine resulting in termination PubMed
    • CymR: transcription repression
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Isabelle Martin-Verstraete, Institute Pasteur, Paris, France

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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