Difference between revisions of "GndA"

From SubtiWiki
Jump to: navigation, search
Line 37: Line 37:
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
<br/><br/><br/><br/>
+
<br/><br/>
<br/><br/><br/><br/>
 
 
 
 
 
<br/><br/><br/><br/><br/><br/>
 
  
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
 
{{SubtiWiki category|[[carbon core metabolism]]}},
 
{{SubtiWiki category|[[carbon core metabolism]]}},
{{SubtiWiki category|[[phosphoproteins]]}}
+
{{SubtiWiki category|[[phosphoproteins]]}},
 +
[[most abundant proteins]]
  
 
= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
Line 81: Line 78:
 
* '''Kinetic information:''' Reversible reaction [http://www.ncbi.nlm.nih.gov/sites/entrez/15231785 PubMed]
 
* '''Kinetic information:''' Reversible reaction [http://www.ncbi.nlm.nih.gov/sites/entrez/15231785 PubMed]
  
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
 
* '''Modification:''' phosphorylation on (Thr-15 OR Thr-17) [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
 
* '''Modification:''' phosphorylation on (Thr-15 OR Thr-17) [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
  
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
Line 112: Line 109:
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=gndA_2480750_2482159_-1 gndA] {{PubMed|22383849}}
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=gndA_2480750_2482159_-1 gndA] {{PubMed|22383849}}
  
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
Line 119: Line 116:
  
 
* '''Additional information:'''
 
* '''Additional information:'''
 +
** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
  
 
=Biological materials =
 
=Biological materials =
  
* '''Mutant:''' GP1514 (''gndA''::''kan''), available in [[Stülke]] lab
+
* '''Mutant:''' GP1514 (''gndA''::''kan''), available in [[Jörg Stülke]]'s lab
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
** pGP1777 (for expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Stülke]] lab)
+
** pGP1777 (for expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab)
** pGP1789 (N-terminal Strep-tag, for [[SPINE]], purification from ''B. subtilis'', in [[pGP1389]]) (available in [[Stülke]] lab)
+
** pGP1789 (N-terminal Strep-tag, for [[SPINE]], purification from ''B. subtilis'', in [[pGP1389]]) (available in [[Jörg Stülke]]'s lab)
** GP1408 (''gndA''-''Strep'' ''(spc)'') & GP1410 (''gndA''-''Strep'' ''(cat)''), purification from ''B. subtilis'', for [[SPINE]], available in [[Stülke]] lab
+
** GP1408 (''gndA''-''Strep'' ''(spc)'') & GP1410 (''gndA''-''Strep'' ''(cat)''), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab
 
          
 
          
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
Line 133: Line 131:
 
* '''GFP fusion:'''
 
* '''GFP fusion:'''
  
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab
+
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
  
 
* '''Antibody:'''
 
* '''Antibody:'''
  
 
* '''FLAG-tag construct:'''  
 
* '''FLAG-tag construct:'''  
** GP1403 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab
+
** GP1403 (spc, based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
** GP1408 (kan, resistance cassette exchange in GP1403), available in the [[Stülke]] lab
+
** GP1408 (kan, resistance cassette exchange in GP1403), available in [[Jörg Stülke]]'s lab
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
Line 146: Line 144:
  
 
=References=
 
=References=
'''Additional publications:''' {{PubMed|15231785}}
+
 
<pubmed>17218307 19407374</pubmed>
+
<pubmed>17218307 19407374 15378759 15231785</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 16:03, 5 March 2014

  • 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:
gndA
MW, pI 51 kDa, 5.076
Gene length, protein length 1407 bp, 469 aa
Immediate neighbours zwf, polY1
Sequences Protein DNA DNA_with_flanks
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, most abundant proteins

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
  • Modification: phosphorylation on (Thr-15 OR Thr-17) PubMed
  • 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

  • Regulation:
  • Regulatory mechanism:

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References