› 2hvd

X-ray diffraction
2.15Å resolution

Human nucleoside diphosphate kinase A complexed with ADP

Released:
DOI: 10.2210/pdb2hvd/pdb
PDB 2hvd coloured by chain and viewed from the front.
PDB 2hvd coloured by chain and viewed from the side.
PDB 2hvd coloured by chain and viewed from the top.
Source organism: Homo sapiens
Primary publication:
Crystal structures of S120G mutant and wild type of human nucleoside diphosphate kinase A in complex with ADP.
Giraud MF, Georgescauld F, Lascu I, Dautant A
J. Bioenerg. Biomembr. 38 261-4 (2006)
PMID: 16944299

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)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside diphosphate kinase A Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 152 amino acids
Theoretical weight: 17.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P15531 (Residues: 1-152; Coverage: 100%)
Gene names: NDPKA, NM23, NME1
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: ESRF BEAMLINE BM30A
Spacegroup: P41212
Unit cell:
a: 114.26Å b: 114.26Å c: 89.789Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.247 0.294
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Activation of Nm23-H1 to suppress breast cancer metastasis via redox regulation.
Kim et al. (2021)
6 more

9 mentions without citation

NME/NM23/NDPK and Histidine Phosphorylation.
Adam et al. (2020)
8 more