› 1v9n

X-ray diffraction
2.1Å resolution

Structure of Malate Dehydrogenase from Pyrococcus horikoshii OT3

Released:
DOI: 10.2210/pdb1v9n/pdb
PDB entry 1v9n coloured by chain, front view.
PDB entry 1v9n coloured by chain, side view.
PDB entry 1v9n coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Entry authors: Lokanath NK, Kunishima N, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
(S)-malate + NAD(+) = oxaloacetate + NADH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129797 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Malate dehydrogenase Chain: A
Molecule details ›
Chain: A
Length: 360 amino acids
Theoretical weight: 40.32 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O59028 (Residues: 1-360; Coverage: 100%)
Gene names: PH1277, mdh
Sequence domains: Malate/L-lactate dehydrogenase
Structure domains:

Ligands and Environments


Cofactor: Ligand NDP 1 x NDP
1 bound ligand:
Ligand GOL 1 x GOL
1 modified residue:
Ligand MSE 11 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P3121
Unit cell:
a: 74.19Å b: 74.19Å c: 127.28Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.208 0.208 0.243
Expression system: Escherichia coli BL21(DE3)

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