SubtiBank SubtiBank
pdhD
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pdhD

dihydrolipoamide dehydrogenase E3 subunit of both pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase complexes
locus
BSU14610
pI
4.76
mw
49.57 kDa
protein length
470 aa Sequence Blast
gene length
1413 bp Sequence Blast
function
links glycolysis and TCA cycle, enzyme in TCA cycle
product
dihydrolipoamide dehydrogenase E3 subunit of both pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase complexes
essential
no
ec
1.8.1.4
synonyms
citL

Genomic Context

      

categories

  • [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.1|Carbon core metabolism] → [category|SW 2.2.1.4|TCA cycle]
  • [category|SW 6|Groups of genes] → [category|SW 6.4|Phosphoproteins] → [category|SW 6.4.8|Phosphorylation on either a Ser, Thr or Tyr residue]
  • Gene

    Coordinates
    1,531,870 → 1,533,282

    Phenotypes of a mutant

  • defects in sporulation and unable to grow on glucose as single carbon source [Pubmed|11976308]
  • The protein

    Catalyzed reaction/ biological activity

  • Protein N(6)-(dihydrolipoyl)lysine + NAD+ = protein N(6)-(lipoyl)lysine + NADH2 (according to UniProt)
  • Protein family

  • class-I pyridine nucleotide-disulfide oxidoreductase family (with [protein|2ECF05AEE1549861EB3AE62139F0E9DEE0B0F632|AcoL] and [protein|1FD06CB6E81C920EFC656DBE2A13D68B1AA68872|LpdV], according to UniProt)
  • Paralogous protein(s)

  • [protein|1FD06CB6E81C920EFC656DBE2A13D68B1AA68872|LpdV], [protein|2ECF05AEE1549861EB3AE62139F0E9DEE0B0F632|AcoL]
  • Kinetic information

  • Michaelis-Menten [Pubmed|6414463]
  • Modification

  • phosphorylated (Ser/Thr/Tyr) [Pubmed|17726680]
  • [SW|Cofactors]

  • FAD (according to UniProt)
  • Effectors of protein activity

  • Inhibited thiamine 2-thiothiazolone diphosphate and NADH [Pubmed|6414463]
  • Low sensibility to NADPH [Pubmed|6414463]
  • Structure

  • [PDB|1EBD] (complex with binding domain of dihydrolipoamide acetylase, Geobacillus stearothermophilus), [PDB|1EBD] (complex with binding domain of dihydrolipoamide acetylase, ''Geobacillus stearothermophilus'')
  • [SW|Localization]

  • cytoplasm (according to UniProt)
  • additional information

  • belongs to the 100 [SW|most abundant proteins] [PubMed|15378759]
  • Expression and Regulation

    Operons

    genes
    [gene|953DE0F0B81894ECFF4C0693511AC238BF3D0C0A|pdhA]-[gene|458E967052D1093A0F48AE0E6B6CCA0F52EAC44D|pdhB]-[gene|2F40086E35FA32136B9A89C530A86D714FE9460C|pdhC]-[gene|E9BBAE86DF3E536A987179CC394B472F6F710498|pdhD]
    description
    [Pubmed|11976308]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|20081037], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]
  • regulatory mechanism

  • [regulon|stringent response|stringent response]: negative regulation, due to presence of guanine at 1 position of the transcript [Pubmed|20081037], in [regulon|stringent response|stringent response]
  • regulation

  • ''[protein|search|pdhA]'': expression activated by glucose (1.9-fold) [Pubmed|12850135]
  • view in new tab

    genes
    [gene|2F40086E35FA32136B9A89C530A86D714FE9460C|pdhC]-[gene|E9BBAE86DF3E536A987179CC394B472F6F710498|pdhD]
    description
    [Pubmed|11976308]

    regulation

  • ''[protein|search|pdhA]'': expression activated by glucose (1.9-fold) [Pubmed|12850135]
  • view in new tab

    Biological materials

    Mutant

  • BKE14610 (Δ[gene|E9BBAE86DF3E536A987179CC394B472F6F710498|pdhD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE14610 BGSC], [Pubmed|28189581], upstream reverse: _UP1_AGGGAAATCTCCTACTACCA, downstream forward: _UP4_TAATTTTCATATCAAAAACA
  • BKK14610 (Δ[gene|E9BBAE86DF3E536A987179CC394B472F6F710498|pdhD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK14610 BGSC], [Pubmed|28189581], upstream reverse: _UP1_AGGGAAATCTCCTACTACCA, downstream forward: _UP4_TAATTTTCATATCAAAAACA
  • lacZ fusion

  • pGP723 (in [SW|pAC5]), available in [SW|Jörg Stülke]'s lab
  • two-hybrid system

  • ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Jörg Stülke]'s lab
  • FLAG-tag construct

  • GP1427 (spc, based on [SW|pGP1331]), available in the [SW|Jörg Stülke]'s lab
  • References

    Reviews

  • 19476487,9655937,2227213,6805383,10672230,24798336
  • Original publications

  • 12850135,6414463,11976308,17726680,20081037,20933603,24204596,15378759