› 1zs6

X-ray diffraction
2.3Å resolution

structure of human nucleoside-diphosphate kinase 3

Released:
DOI: 10.2210/pdb1zs6/pdb
PDB entry 1zs6 coloured by chain, front view.
PDB entry 1zs6 coloured by chain, side view.
PDB entry 1zs6 coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Choe J, Dimov S, Arrowsmith C, Edwards A, Sundstrom M, Bochkarev A, Park H, Structural Genomics Consortium (SGC)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171611 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside diphosphate kinase 3 Chains: A, B, D
Molecule details ›
Chains: A, B, D
Length: 169 amino acids
Theoretical weight: 19.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q13232 (Residues: 1-169; Coverage: 100%)
Gene name: NME3
Sequence domains: Nucleoside diphosphate kinase
Structure domains: Nucleoside diphosphate kinase-like domain

Ligands and Environments

1 bound ligand:
Ligand ADP 3 x ADP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E
Spacegroup: P43212
Unit cell:
a: 86.614Å b: 86.614Å c: 126.856Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.211 0.255
Expression system: Escherichia coli BL21(DE3)

Quick links