› 2j5r

X-ray diffraction
2.25Å resolution

2.25 A resolution structure of the wild type malate dehydrogenase from Haloarcula marismortui after second radiation burn (radiation damage series)

Released:
DOI: 10.2210/pdb2j5r/pdb
PDB entry 2j5r coloured by chain, front view.
PDB entry 2j5r coloured by chain, side view.
PDB entry 2j5r coloured by chain, top view.
Source organism: Haloarcula marismortui
Primary publication:
Specific radiation damage to acidic residues and its relation to their chemical and structural environment.
Fioravanti E, Vellieux FM, Amara P, Madern D, Weik M
J Synchrotron Radiat 14 84-91 (2007)
PMID: 17211074

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170550 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Malate dehydrogenase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 304 amino acids
Theoretical weight: 32.84 KDa
Source organism: Haloarcula marismortui
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q07841 (Residues: 1-304; Coverage: 100%)
Gene names: mdh, rrnAC2706
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand CL 8 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: C2
Unit cell:
a: 127.377Å b: 114.574Å c: 124.529Å
α: 90° β: 93.34° γ: 90°
R-values:
R R work R free
0.22 0.22 0.271
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 review citations

Bacteriorhodopsin: Would the real structural intermediates please stand up?
Wickstrand et al. (2015)
3 more

1 mention without citation

OH cleavage from tyrosine: debunking a myth.
Bury et al. (2017)