Difference between revisions of "Sandbox"

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* '''Description:''' two-component response regulator, regulation of phosphate metabolism <br/><br/>
+
* '''Description:''' phosphatase (RapC) regulator / competence and sporulation stimulating factor (CSF) <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'''
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|''phoP''
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|''phrC''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || two-component response regulator
+
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphatase (RapC) regulator / competence and sporulation stimulating factor (CSF)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of phosphate metabolism <br/>(phoA, phoB, phoD, resABCDE, tagAB, tagDEF, tuaA-H)
+
|style="background:#ABCDEF;" align="center"|'''Function''' || control of sporulation initiation
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 5.068  
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 4 kDa, 8.16  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 720 bp, 240 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 120 bp, 40 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[phoR]]'', ''[[mdh]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rapC]]'', ''[[yclM]]''
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14871&#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:CAB12186&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|-
+
|colspan="2" | '''Genetic context''' <br/> [[Image:phrC_context.gif]]
−
|-
 
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|colspan="2" | '''Genetic context''' <br/> [[Image:phoP_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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__TOC__
 
__TOC__
  
−
<br/><br/><br/><br/>
+
<br/><br/>
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU29110
+
* '''Locus tag:''' BSU03780
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/phoPR.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rapC-phrC.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10363]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11959]
  
 
=== Additional information===
 
=== Additional information===
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:'''
+
* '''Protein family:''' phr family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
−
 
−
=== Genes controlled by PhoP ===
 
−
 
−
* '''Activation by PhoP:''' ''[[phoP]]-[[phoR]]''
 
−
 
−
* '''Repression by PhoP:'''
 
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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* '''Domains:'''  
 
* '''Domains:'''  
  
−
* '''Modification:''' phosphorylation by [[PhoR]] under conditions of phosphate limitation (stimulates DNA-binding activity)
+
* '''Modification:'''
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[PhoP]]-[[PhoP]],  [[PhoP]]-[[PhoR]]
+
* '''Interactions:''' [[RapC]]-[[PhrC]]
  
−
* '''Localization:''' cell membrane (according to Swiss-Prot)
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1MVO 1MVO] (receiver domain)
+
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P13792 P13792]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P94416 P94416]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU29110]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU03780]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:''' ''[[phoP]]-[[phoR]]''
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
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* '''Regulation:''' repressed by glucose (4.3-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed], induced by phosphate limitation ([[PhoP]]), carbon catabolite repression ([[CcpA]])
+
* '''Regulation:''' repressed by glucose (4.5-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]   
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  [[PhoP]]: transcription activation, [[CcpA]]: transcription repression
+
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
[[Marion Hulett]], University of Illinois at Chicago, USA [http://www.uic.edu/depts/bios/faculty/hulett/hulettm.shtml Homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=

Revision as of 13:29, 8 June 2009

  • Description: phosphatase (RapC) regulator / competence and sporulation stimulating factor (CSF)

Gene name phrC
Synonyms
Essential no
Product phosphatase (RapC) regulator / competence and sporulation stimulating factor (CSF)
Function control of sporulation initiation
MW, pI 4 kDa, 8.16
Gene length, protein length 120 bp, 40 aa
Immediate neighbours rapC, yclM
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
PhrC context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU03780

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

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization:

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation: repressed by glucose (4.5-fold) (CcpA) PubMed
  • Regulatory mechanism: CcpA: transcription repression
  • 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

Hans-Matti Blencke, Georg Homuth, Holger Ludwig, Ulrike Mäder, Michael Hecker, Jörg Stülke
Transcriptional profiling of gene expression in response to glucose in Bacillus subtilis: regulation of the central metabolic pathways.
Metab Eng: 2003, 5(2);133-49
[PubMed:12850135] [WorldCat.org] [DOI] (P p)

  1. Blencke et al. (2003) Transcriptional profiling of gene expression in response to glucose in Bacillus subtilis: regulation of the central metabolic pathways. Metab Eng. 5: 133-149 PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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