Difference between revisions of "Sandbox"

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* '''Description:''' ribosomal protein L3 <br/><br/>
+
* '''Description:''' required for SigG activation <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'''
−
|''rplC''
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|''spoIIIAF''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || ribosomal protein L3 (BL3)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || translation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || activation of SigG
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 10.31  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 4.952  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 627 bp, 209 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 618 bp, 206 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpsJ]]'', ''[[rplD]]''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIIIAG]]'', ''[[spoIIIAE]]''
 
|-
 
|-
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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:CAB11892&#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:CAB14369&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:rplC_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:spoIIIAF_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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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
−
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' no entry
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqhV-spoIIIAABCDEFGH.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11218]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11413]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' [[RplC]] binding to the precursor 23S rRNA stimulates [[MrnC]] activity [http://www.ncbi.nlm.nih.gov/sites/entrez/19154332 PubMed]
+
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' ribosomal protein L3P family (according to Swiss-Prot)
+
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[YsxC]]-[[RplC]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17981968 PubMed]
+
* '''Interactions:'''
  
−
* '''Localization:'''
+
* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18485064 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P42920 P42920]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P49783 P49783]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU01160 BSU01160]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU24380 BSU24380]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[spoIIIAA]]-[[spoIIIAB]]-[[spoIIIAC]]-[[spoIIIAD]]-[[spoIIIAE]]-[[spoIIIAF]]-[[spoIIIAG]]-[[spoIIIAH]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/18485064 PubMed]
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:''' [[SigE]] [http://www.ncbi.nlm.nih.gov/sites/entrez/18485064 PubMed]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' expressed during sporulation in the mother cell ([[SigE]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/18485064 PubMed], switched off by [[SpoIIID]] [http://www.ncbi.nlm.nih.gov/sites/entrez/15383836 PubMed]
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' [[SpoIIID]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/15383836 PubMed]
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
  
−
# Redko, Y. & Condon, C. (2009) Ribosomal protein L3 bound to 23S precursor rRNA stimulates its maturation by Mini-III ribonuclease.  ''Mol. Microbiol.'' '''71:''' 1145-1154. [http://www.ncbi.nlm.nih.gov/sites/entrez/19154332 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 14:38, 25 May 2009

  • Description: required for SigG activation

Gene name spoIIIAF
Synonyms
Essential no
Product unknown
Function activation of SigG
MW, pI 23 kDa, 4.952
Gene length, protein length 618 bp, 206 aa
Immediate neighbours spoIIIAG, spoIIIAE
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
SpoIIIAF 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

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • E.C. number:

Additional information

Expression and regulation

  • 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. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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