kduD

168

2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase

Locus: BSU_22140

Molecular weight: 27.04 kDa

Isoelectric point: 6.5

Protein length: 254 aa

Gene length: 765 bp

Function: utilization of galacturonic acid

Essential: no

E.C.: 1.1.1.125

Synonyms: kduD

Genomic Context

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List of homologs in different organisms, belongs to COG1028 (Galperin et al., 2021)

Gene

Coordinates: 2,326,683 → 2,327,447

The protein

Catalyzed reaction/ biological activity

• 2-dehydro-3-deoxy-D-gluconate + NAD⁺ --> 3-deoxy-D-glycero-2,5-hexodiulosonate + H⁺ + NADH (according to UniProt)

Protein family

• Short-chain dehydrogenases/reductases (SDR) family (according to UniProt)

Structure

• 4HP8 (PDB) (from Agrobacterium tumefaciens, 54% identity)
• P50842 (AlphaFold)

Paralogous protein(s)

• YdaD, (36.7%)
  YhxC, (33,6%)
  YcdF, (34.3%)
  YhdF, (33.1%)

Expression and Regulation

Operons

• Genes: kduI-kduD

  Description: PubMed

  Regulation

  • induced by galacturonate (KdgR) PubMed

  Regulatory mechanism

  • KdgR: repression, PubMed, in kdgR regulon
  • CcpA: repression, PubMed, in ccpA regulon

  Sigma factors

  • SigA: sigma factor, PubMed, in sigA regulon

Biological materials

Mutant

• BKE22140 (ΔkduD::erm  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_AAAGGCGTCATGTAGATAAC,  downstream forward: _UP4_TGACAAATAAAAAAGCTGAC
• BKK22140 (ΔkduD::kan  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_AAAGGCGTCATGTAGATAAC,  downstream forward: _UP4_TGACAAATAAAAAAGCTGAC

References

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