Difference between revisions of "Sandbox"

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* '''Description:''' transcriptional repressor of the iol operon <br/><br/>
+
* '''Description:''' transcriptional repressor of the beta-galactosidase gene <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'''
−
|''iolR''
+
|''lacR''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvfJ ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor (LacI family)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of myo-inositol catabolism
+
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 6.331  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37 kDa, 5.396  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 753 bp, 251 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 990 bp, 330 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[iolA]]'', ''[[iolS]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[cycB]]'', ''[[lutR]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16013&#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:CAB15422&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:iolR_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:lacR_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:''' BSU39770
+
* '''Locus tag:''' BSU34170
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/iolRS.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11364]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12435]
  
 
=== Additional information===
 
=== Additional information===
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* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' inducer: 2-deoxy-5-keto-D-gluconic acid-6-phosphate
+
* '''Effectors of protein activity:'''
  
 
* '''Interactions:'''
 
* '''Interactions:'''
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P46337 P46337]
+
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU39770]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU34170]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[iolR]]-[[iolS]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9226270 PubMed]
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/9226270 PubMed]
+
* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
−
** induced by inositol ([[IolR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/9226270 PubMed]
 
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
−
** [[IolR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9226270 PubMed]
 
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:'''
+
* '''Mutant:'''  
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
−
* [[Yasutaro Fujita]], University of Fukuyama, Japan
 
−
* [[Ken-ichi Yoshida]], Kobe University, Japan
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
<pubmed>18310071, </pubmed>
+
<pubmed>9287030, </pubmed>
−
# Yoshida K, Yamaguchi M, Morinaga T, Kinehara M, Ikeuchi M, Ashida H, Fujita Y. (2008) myo-Inositol catabolism in Bacillus subtilis. ''J Biol Chem. '' ''' Apr 18;283(16):''' 10415-24. [http://www.ncbi.nlm.nih.gov/sites/entrez/18310071 PubMed]
+
# Daniel RA, Haiech J, Denizot F, Errington J. (1997) Isolation and characterization of the ''lacA'' gene encoding beta-galactosidase in ''Bacillus subtilis'' and a regulator gene, ''lacR''. J. Bacteriol. 179:5636-5638. [http://www.ncbi.nlm.nih.gov/sites/entrez/9287030 PubMed]
 +
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 13:21, 8 June 2009

  • Description: transcriptional repressor of the beta-galactosidase gene

Gene name lacR
Synonyms yvfJ
Essential no
Product transcriptional repressor (LacI family)
Function unknown
MW, pI 37 kDa, 5.396
Gene length, protein length 990 bp, 330 aa
Immediate neighbours cycB, lutR
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
LacR context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU34170

Phenotypes of a mutant

Database entries

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

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:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • 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

R A Daniel, J Haiech, F Denizot, J Errington
Isolation and characterization of the lacA gene encoding beta-galactosidase in Bacillus subtilis and a regulator gene, lacR.
J Bacteriol: 1997, 179(17);5636-8
[PubMed:9287030] [WorldCat.org] [DOI] (P p)

  1. Daniel RA, Haiech J, Denizot F, Errington J. (1997) Isolation and characterization of the lacA gene encoding beta-galactosidase in Bacillus subtilis and a regulator gene, lacR. J. Bacteriol. 179:5636-5638. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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