Difference between revisions of "Sandbox"

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−
* '''Description:''' GMP reductase <br/><br/>
+
* '''Description:''' D-sorbitol dehydrogenase <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'''
−
|''guaC''
+
|''gutB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yumD ''
+
|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''' || GMP reductase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || D-sorbitol dehydrogenase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || purine salvage and interconversion
+
|style="background:#ABCDEF;" align="center"|'''Function''' || glucitol utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 6.078  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 38 kDa, 5.213  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 978 bp, 326 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1059 bp, 353 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yuzG]]'', ''[[paiB]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gutR]]'', ''[[gutP]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15203&#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:CAB12434&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|-
+
|colspan="2" | '''Genetic context''' <br/> [[Image:gutB_context.gif]]
−
|-
 
−
|colspan="2" | '''Genetic context''' <br/> [[Image:guaC_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:''' BSU32130
+
* '''Locus tag:''' BSU06150
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 43: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/guaC.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/gutBP.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12392]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10177]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' Inosine 5'-phosphate + NH<sub>3</sub> + NADP<sup>+</sup> = guanosine 5'-phosphate + NADPH (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' L-iditol + NAD<sup>+</sup> = L-sorbose + NADH (according to Swiss-Prot)  
  
−
* '''Protein family:''' GuaC type 2 subfamily (according to Swiss-Prot)
+
* '''Protein family:''' zinc-containing alcohol dehydrogenase family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 80: Line 78:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O05269 O05269]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/Q06004 Q06004]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU32130]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU06150]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.7.1.7 1.7.1.7]
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.14 1.1.1.14]
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[gutP]]-[[gutB]]''
  
−
* '''[[Sigma factor]]:'''  
+
* '''[[Sigma factor]]:''' [[SigA]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
−
** expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] 
 
−
** repressed in the presence of adenine or adenosine([[PurR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/2536750 PubMed]
 
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
−
** [[PurR]]: transcription repression (molecular inducer: PRPP) [http://www.ncbi.nlm.nih.gov/sites/entrez/2536750 PubMed]
 
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 123: Line 118:
 
=References=
 
=References=
  
−
<pubmed>12850135, </pubmed>
+
<pubmed>1460002, </pubmed>
−
# 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 [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
+
# Ng K, Ye R, Wu XC, Wong SL. (1992) Sorbitol dehydrogenase from Bacillus subtilis. Purification, characterization, and gene cloning. ''J Biol Chem. '' '''Dec 15;267(35):''' 24989-94. [http://www.ncbi.nlm.nih.gov/sites/entrez/1460002 PubMed]
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 

Revision as of 14:06, 8 June 2009

  • Description: D-sorbitol dehydrogenase

Gene name gutB
Synonyms
Essential no
Product D-sorbitol dehydrogenase
Function glucitol utilization
MW, pI 38 kDa, 5.213
Gene length, protein length 1059 bp, 353 aa
Immediate neighbours gutR, gutP
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
GutB context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU06150

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: L-iditol + NAD+ = L-sorbose + NADH (according to Swiss-Prot)
  • Protein family: zinc-containing alcohol dehydrogenase family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]

Additional information

Expression and regulation

  • 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

K Ng, R Ye, X C Wu, S L Wong
Sorbitol dehydrogenase from Bacillus subtilis. Purification, characterization, and gene cloning.
J Biol Chem: 1992, 267(35);24989-94
[PubMed:1460002] [WorldCat.org] (P p)

  1. Ng K, Ye R, Wu XC, Wong SL. (1992) Sorbitol dehydrogenase from Bacillus subtilis. Purification, characterization, and gene cloning. J Biol Chem. Dec 15;267(35): 24989-94. PubMed
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