3vgv

X-ray diffraction
2.5Å resolution

E134A mutant nucleoside diphosphate kinase derived from Halomonas sp. 593

Released:

Function and Biology Details

Reaction catalysed:
ATP + nucleoside diphosphate = ADP + nucleoside triphosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
PDBe Complex ID:
PDB-CPX-182975 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside diphosphate kinase Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
Length: 141 amino acids
Theoretical weight: 15.23 KDa
Source organism: Halomonas sp. #593
Expression system: Escherichia coli
UniProt:
  • Canonical: Q83WH5 (Residues: 1-141; Coverage: 100%)
Gene name: ndk
Sequence domains: Nucleoside diphosphate kinase
Structure domains: Nucleoside diphosphate kinase-like domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: P21
Unit cell:
a: 112.165Å b: 92.017Å c: 113.613Å
α: 90° β: 94.72° γ: 90°
R-values:
R R work R free
0.218 0.216 0.269
Expression system: Escherichia coli