Difference between revisions of "GndA"

From SubtiWiki
Jump to: navigation, search
(Biological materials)
Line 14: Line 14:
 
|style="background:#ABCDEF;" align="center"|'''Function''' || pentose phosphate pathway
 
|style="background:#ABCDEF;" align="center"|'''Function''' || pentose phosphate pathway
 
|-
 
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU23860 gndA]
+
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU23860 gndA]
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
Line 24: Line 24:
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[zwf]]'', ''[[polY1]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[zwf]]'', ''[[polY1]]''
 
|-
 
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14318&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU23860 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU23860 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU23860 Advanced_DNA]
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:yqjI_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:yqjI_context.gif]]

Revision as of 13:13, 13 May 2013

  • Description: NADP-dependent phosphogluconate dehydrogenase

Gene name gndA
Synonyms yqjI
Essential no
Product NADP-dependent phosphogluconate dehydrogenase
Function pentose phosphate pathway
Gene expression levels in SubtiExpress: gndA
Metabolic function and regulation of this protein in SubtiPathways:
Central C-metabolism
MW, pI 51 kDa, 5.076
Gene length, protein length 1407 bp, 469 aa
Immediate neighbours zwf, polY1
Sequences Protein DNA Advanced_DNA
Genetic context
YqjI context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
GndA expression.png




























Categories containing this gene/protein

carbon core metabolism, phosphoproteins

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU23860

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: Reversible reaction PubMed
  • Domains:
  • Modification: phosphorylation on (Thr-15 OR Thr-17) PubMed
  • Cofactor(s):
  • Effectors of protein activity:

Database entries

  • Structure: 2W8Z (from Geobacillus stearothermophilus, 83% identity, 92% similarity) PubMed
  • KEGG entry: [3]

Additional information

It contains a cysteine on the active site. The enzyme is a dimer. PubMed

Expression and regulation

  • Sigma factor:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant: GP1514 (gndA::kan), available in Stülke lab
  • Expression vector:
    • pGP1777 (for expression, purification in E. coli with N-terminal Strep-tag, in pGP172, available in Stülke lab)
    • pGP1789 (N-terminal Strep-tag, for SPINE, purification from B. subtilis, in pGP1389) (available in Stülke lab)
    • GP1408 (gndA-Strep (spc)) & GP1410 (gndA-Strep (cat)), purification from B. subtilis, for SPINE, available in Stülke lab
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Stülke lab
  • Antibody:
  • FLAG-tag construct:
    • GP1403 (spc, based on pGP1331), available in the Stülke lab
    • GP1408 (kan, resistance cassette exchange in GP1403), available in the Stülke lab

Labs working on this gene/protein

Your additional remarks

References

Additional publications: PubMed

Scott Cameron, Viviane P Martini, Jorge Iulek, William N Hunter
Geobacillus stearothermophilus 6-phosphogluconate dehydrogenase complexed with 6-phosphogluconate.
Acta Crystallogr Sect F Struct Biol Cryst Commun: 2009, 65(Pt 5);450-4
[PubMed:19407374] [WorldCat.org] [DOI] (I p)

Boris Macek, Ivan Mijakovic, Jesper V Olsen, Florian Gnad, Chanchal Kumar, Peter R Jensen, Matthias Mann
The serine/threonine/tyrosine phosphoproteome of the model bacterium Bacillus subtilis.
Mol Cell Proteomics: 2007, 6(4);697-707
[PubMed:17218307] [WorldCat.org] [DOI] (P p)