Difference between revisions of "Sandbox"

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−
* '''Description:''' gluconokinase <br/><br/>
+
* '''Description:''' 6-phosphogluconate 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'''
−
|''gntK''
+
|''gntZ''
 
|-
 
|-
 
|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  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || gluconokinase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || 6-phosphogluconate dehydrogenase
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || gluconate utilization
 
|style="background:#ABCDEF;" align="center"|'''Function''' || gluconate utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56 kDa, 5.517  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 51 kDa, 4.756  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1539 bp, 513 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1404 bp, 468 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gntR]]'', ''[[gntP]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gntP]]'', ''[[ahpC]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16043&#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:CAB16045&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:gntK_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:gntZ_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:''' BSU40060
+
* '''Locus tag:''' BSU40080
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/gntRKPZ.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/gntRKPZ.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10649]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10651]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' ATP + D-gluconate = ADP + 6-phospho-D-gluconate (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' 6-phospho-D-gluconate + NADP<sup>+</sup> = D-ribulose 5-phosphate + CO<sub>2</sub> + NADPH (according to Swiss-Prot)  
  
−
* '''Protein family:''' FGGY kinase family (according to Swiss-Prot)
+
* '''Protein family:''' 6-phosphogluconate dehydrogenase 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/P12011 P12011]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P12013 P12013]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU40060]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU40080]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.12 2.7.1.12]
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.44 1.1.1.44]
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[gntR]]-[[gntK]]-[[gntP]]-[[gntZ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/10746760 PubMed1][http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed2]
+
* '''Operon:''' ''[[gntR]]-[[gntK]]-[[gntP]]-[[gntZ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/10746760 PubMed1] [http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed2]
  
 
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed]
 
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed]
Line 123: Line 123:
  
 
<pubmed>3020045 1659648, </pubmed>
 
<pubmed>3020045 1659648, </pubmed>
 +
  
 
# Fujita Y, Fujita T, Miwa Y, Nihashi J, Aratani Y. (1986) Organization and transcription of the gluconate operon, gnt, of Bacillus subtilis. ''J Biol Chem.'' '''Oct 15;261(29):''' 13744-53. [http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed]
 
# Fujita Y, Fujita T, Miwa Y, Nihashi J, Aratani Y. (1986) Organization and transcription of the gluconate operon, gnt, of Bacillus subtilis. ''J Biol Chem.'' '''Oct 15;261(29):''' 13744-53. [http://www.ncbi.nlm.nih.gov/sites/entrez/3020045 PubMed]
 
# Reizer A., Deutscher J., Saier M.H. Jr., Reizer J. (1991) Analysis of the gluconate (gnt) operon of Bacillus subtilis. ''Mol. Microbiol.'' '''5:''' 1081-1089. [http://www.ncbi.nlm.nih.gov/sites/entrez/1659648 PubMed]
 
# Reizer A., Deutscher J., Saier M.H. Jr., Reizer J. (1991) Analysis of the gluconate (gnt) operon of Bacillus subtilis. ''Mol. Microbiol.'' '''5:''' 1081-1089. [http://www.ncbi.nlm.nih.gov/sites/entrez/1659648 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 14:05, 8 June 2009

  • Description: 6-phosphogluconate dehydrogenase

Gene name gntZ
Synonyms
Essential no
Product 6-phosphogluconate dehydrogenase
Function gluconate utilization
MW, pI 51 kDa, 4.756
Gene length, protein length 1404 bp, 468 aa
Immediate neighbours gntP, ahpC
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
GntZ context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU40080

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: 6-phospho-D-gluconate + NADP+ = D-ribulose 5-phosphate + CO2 + NADPH (according to Swiss-Prot)
  • Protein family: 6-phosphogluconate 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

  • 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

A Reizer, J Deutscher, M H Saier, J Reizer
Analysis of the gluconate (gnt) operon of Bacillus subtilis.
Mol Microbiol: 1991, 5(5);1081-9
[PubMed:1659648] [WorldCat.org] [DOI] (P p)

Y Fujita, T Fujita, Y Miwa, J Nihashi, Y Aratani
Organization and transcription of the gluconate operon, gnt, of Bacillus subtilis.
J Biol Chem: 1986, 261(29);13744-53
[PubMed:3020045] [WorldCat.org] (P p)


  1. Fujita Y, Fujita T, Miwa Y, Nihashi J, Aratani Y. (1986) Organization and transcription of the gluconate operon, gnt, of Bacillus subtilis. J Biol Chem. Oct 15;261(29): 13744-53. PubMed
  2. Reizer A., Deutscher J., Saier M.H. Jr., Reizer J. (1991) Analysis of the gluconate (gnt) operon of Bacillus subtilis. Mol. Microbiol. 5: 1081-1089. PubMed
  3. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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