Difference between revisions of "Sandbox"

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* '''Description:''' protein serine phosphatase, environmental PP2C, dephosphorylates RsbV <br/><br/>
+
* '''Description:''' transcription repressor of the pur operon <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'''
−
|''rsbU''
+
|''purR''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yabI ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || protein serine phosphatase, environmental PP2C
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor of the pur operon
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of SigB activity
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of purine biosynthesis
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 38 kDa, 4.906  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 5.771  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1005 bp, 335 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rsbT]]'', ''[[rsbV]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ispE]]'', ''[[yabJ]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12277&#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:CAB11823&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:rsbU_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:purR_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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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rsbRSTUVW-sigB-rsbX.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/purR-yabJ.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11057]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10110]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Biological activity:''' transcriptional repressor of purine biosynthetic operons
  
 
* '''Protein family:'''
 
* '''Protein family:'''
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* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:'''
+
* '''Effectors of protein activity:''' PRPP acts as inducer, binding results in release of PurR from the operator [http://www.ncbi.nlm.nih.gov/sites/entrez/10919400 PubMed]
  
−
* '''Interactions:''' RsbT-RsbU, RsbS-RsbU, RsbU-RsbV
+
* '''Interactions:''' PurR-Prs
  
 
* '''Localization:'''
 
* '''Localization:'''
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=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:'''
+
* '''Structure:''' 1P4A (complex with PRPP) [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?uid=25670 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/12837783 PubMed]
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O07014]
+
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU04700]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU00470]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
 +
 +
requires [[YabJ]] for ''in vivo'' activity
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[purR]]-[[yabJ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:'''  
+
* '''Regulation:''' negative autoregulation [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' repression by [[PurR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
  
 
* '''Additional information:'''  
 
* '''Additional information:'''  
Line 118: Line 120:
 
=References=
 
=References=
  
 +
# Weng et al. (1995) Identification of the ''Bacillus subtilis pur'' operon repressor. ''Proc. Natl. Acad. Sci. USA'' '''92:''' 7455-7459. [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
 +
# Weng & Zalkin (2000) Mutations in the ''Bacillus subtilis'' purine repressor that perturb PRPP effector function ''in vitro'' and ''in vivo''.''Currr. Microbiol.'' '''41:''' 56-59. [http://www.ncbi.nlm.nih.gov/sites/entrez/10919400 PubMed]
 +
# Sinha et al. (2003) The purine repressor of ''Bacillus subtilis'': a novel combination of domains adapted for transcription regulation.''J. Bacteriol.'' '''185:''' 4087-4098. [http://www.ncbi.nlm.nih.gov/sites/entrez/12837783 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 15:50, 27 April 2009

  • Description: transcription repressor of the pur operon

Gene name purR
Synonyms yabI
Essential no
Product transcription repressor of the pur operon
Function regulation of purine biosynthesis
MW, pI 31 kDa, 5.771
Gene length, protein length 855 bp, 285 aa
Immediate neighbours ispE, yabJ
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
PurR 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

  • Biological activity: transcriptional repressor of purine biosynthetic operons
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity: PRPP acts as inducer, binding results in release of PurR from the operator PubMed
  • Interactions: PurR-Prs
  • Localization:

Database entries

  • Swiss prot entry:
  • KEGG entry: [3]
  • E.C. number:

Additional information

requires YabJ for in vivo activity

Expression and regulation

  • Regulation: negative autoregulation 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

  1. Weng et al. (1995) Identification of the Bacillus subtilis pur operon repressor. Proc. Natl. Acad. Sci. USA 92: 7455-7459. PubMed
  2. Weng & Zalkin (2000) Mutations in the Bacillus subtilis purine repressor that perturb PRPP effector function in vitro and in vivo.Currr. Microbiol. 41: 56-59. PubMed
  3. Sinha et al. (2003) The purine repressor of Bacillus subtilis: a novel combination of domains adapted for transcription regulation.J. Bacteriol. 185: 4087-4098. PubMed
  4. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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