› 2ztv

X-ray diffraction
1.95Å resolution

The binary complex of D-3-hydroxybutyrate dehydrogenase with NAD+

Released:
DOI: 10.2210/pdb2ztv/pdb
PDB entry 2ztv coloured by chain, front view.
PDB entry 2ztv coloured by chain, side view.
PDB entry 2ztv coloured by chain, top view.
Source organism: Pseudomonas fragi
Primary publication:
Closed complex of the D-3-hydroxybutyrate dehydrogenase induced by an enantiomeric competitive inhibitor.
Nakashima K, Ito K, Nakajima Y, Yamazawa R, Miyakawa S, Yoshimoto T
J Biochem 145 467-79 (2009)
PMID: 19122202

Function and Biology Details

Reaction catalysed: 
(R)-3-hydroxybutanoate + NAD(+) = acetoacetate + NADH
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177351 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D(-)-3-hydroxybutyrate dehydrogenase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 260 amino acids
Theoretical weight: 26.71 KDa
Source organism: Pseudomonas fragi
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5KST5 (Residues: 1-260; Coverage: 100%)
Sequence domains: Enoyl-(Acyl carrier protein) reductase
Structure domains: NAD(P)-binding Rossmann-like Domain

Ligands and Environments


Cofactor: Ligand NAD 4 x NAD
2 bound ligands:
Ligand MG 2 x MG
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P212121
Unit cell:
a: 73.23Å b: 106.793Å c: 163.164Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.201 0.236
Expression system: Escherichia coli

Quick links

Citations

4 citation in other articles

Crystal structure of serine dehydrogenase from Escherichia coli: important role of the C-terminal region for closed-complex formation.
Yamazawa et al. (2011)
3 more