› 1ucn

X-ray diffraction
2Å resolution

X-ray structure of human nucleoside diphosphate kinase A complexed with ADP at 2 A resolution

Released:
DOI: 10.2210/pdb1ucn/pdb
PDB entry 1ucn coloured by chain, front view.
PDB entry 1ucn coloured by chain, side view.
PDB entry 1ucn coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Nucleotide binding to nucleoside diphosphate kinases: X-ray structure of human NDPK-A in complex with ADP and comparison to protein kinases.
Chen Y, Gallois-Montbrun S, Schneider B, Véron M, Moréra S, Deville-Bonne D, Janin J
J Mol Biol 332 915-26 (2003)
PMID: 12972261

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-147400 (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: 17.13 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

4 bound ligands:
Ligand PO4 3 x PO4
Ligand CA 5 x CA
Ligand ADP 3 x ADP
Ligand TRS 1 x TRS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: P41212
Unit cell:
a: 116.075Å b: 116.075Å c: 91.292Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.237 0.237 0.282
Expression system: Escherichia coli

Quick links

Citations

5 review citations

The mammalian Nm23/NDPK family: from metastasis control to cilia movement.
Boissan et al. (2009)
4 more

6 mentions without citation

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