Difference between revisions of "Sandbox"

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−
* '''Description:''' formation of 2-deoxy-5-keto-gluconic acid (4th reaction) <br/><br/>
+
* '''Description:''' 2-keto-myo-inositol dehydratase, dehydration of 2-keto-myo-inositol (2nd reaction) <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'''
−
|''iolB''
+
|''iolE''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yxdB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yxdE ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || formation of 2-deoxy-5-keto-gluconic acid (4th reaction)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || 2-keto-myo-inositol dehydratase, <br/>dehydration of 2-keto-myo-inositol (2nd reaction)  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || myo-inositol catabolism
 
|style="background:#ABCDEF;" align="center"|'''Function''' || myo-inositol catabolism
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 4.77  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33 kDa, 5.209  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 813 bp, 271 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 891 bp, 297 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[iolC]]'', ''[[iolA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[iolF]]'', ''[[iolD]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16011&#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:CAB16008&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:iolB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:iolE_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/>
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU39750
+
* '''Locus tag:''' BSU39720
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mmsA-iolBCDEF-idh-iolHI-fbaB.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mmsA-iolBCDEF-idh-iolHI-fbaB.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11118]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11121]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' 5-deoxy-glucuronic acid = 5-dehydro-2-deoxy-D-gluconic acid (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' 2,4,6/3,5-pentahydroxycyclohexanone = 3,5/4-trihydroxycyclohexa-1,2-dione + H<sub>2</sub>O (according to Swiss-Prot)  
  
−
* '''Protein family:''' isomerase iolB family (according to Swiss-Prot)
+
* '''Protein family:''' iolE/mocC family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P42413 P42413]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P42416 P42416]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU39750]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU39720]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.44 4.2.1.44]
  
 
=== Additional information===
 
=== Additional information===
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=References=
 
=References=
  
−
<pubmed>18310071, </pubmed>
+
<pubmed>18310071 14993306, </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]
 
# 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]
 +
# Yoshida K., Yamaguchi M., Ikeda H., Omae K., Tsurusaki K., Fujita Y. (2004) The fifth gene of the iol operon of Bacillus subtilis, iolE, encodes 2-keto-myo-inositol dehydratase. ''Microbiology'' '''Mar;150(Pt 3):''' 571-80. [http://www.ncbi.nlm.nih.gov/sites/entrez/14993306 PubMed]

Revision as of 13:21, 8 June 2009

  • Description: 2-keto-myo-inositol dehydratase, dehydration of 2-keto-myo-inositol (2nd reaction)

Gene name iolE
Synonyms yxdE
Essential no
Product 2-keto-myo-inositol dehydratase,
dehydration of 2-keto-myo-inositol (2nd reaction)
Function myo-inositol catabolism
MW, pI 33 kDa, 5.209
Gene length, protein length 891 bp, 297 aa
Immediate neighbours iolF, iolD
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
IolE context.gif
This image was kindly provided by SubtiList




The gene

Basic information

  • Locus tag: BSU39720

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: 2,4,6/3,5-pentahydroxycyclohexanone = 3,5/4-trihydroxycyclohexa-1,2-dione + H2O (according to Swiss-Prot)
  • Protein family: iolE/mocC 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

  • 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

Ken-ichi Yoshida, Masanori Yamaguchi, Tetsuro Morinaga, Masaki Kinehara, Maya Ikeuchi, Hitoshi Ashida, Yasutaro Fujita
myo-Inositol catabolism in Bacillus subtilis.
J Biol Chem: 2008, 283(16);10415-24
[PubMed:18310071] [WorldCat.org] [DOI] (P p)

Ken-Ichi Yoshida, Masanori Yamaguchi, Hideki Ikeda, Kaoru Omae, Ken-Ichi Tsurusaki, Yasutaro Fujita
The fifth gene of the iol operon of Bacillus subtilis, iolE, encodes 2-keto-myo-inositol dehydratase.
Microbiology (Reading): 2004, 150(Pt 3);571-580
[PubMed:14993306] [WorldCat.org] [DOI] (P p)


  1. 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. PubMed
  2. Yoshida K., Yamaguchi M., Ikeda H., Omae K., Tsurusaki K., Fujita Y. (2004) The fifth gene of the iol operon of Bacillus subtilis, iolE, encodes 2-keto-myo-inositol dehydratase. Microbiology Mar;150(Pt 3): 571-80. PubMed
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