› 6xpu

X-ray diffraction
1.9Å resolution

Nucleoside Diphosphate Kinase from Aspergillus fumgiatus Af293 bound to IDP

Released:
DOI: 10.2210/pdb6xpu/pdb
PDB entry 6xpu coloured by chain, front view.
PDB entry 6xpu coloured by chain, side view.
PDB entry 6xpu coloured by chain, top view.
Source organism: Aspergillus fumigatus Af293
Primary publication:
Nucleoside selectivity of Aspergillus fumigatus nucleoside-diphosphate kinase.
Nguyen S, Jovcevski B, Pukala TL, Bruning JB
FEBS J 288 2398-2417 (2021)
PMID: 33089641

Function and Biology Details

Reaction catalysed: 
ATP + nucleoside diphosphate = ADP + nucleoside triphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-182313 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside diphosphate kinase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 162 amino acids
Theoretical weight: 18.06 KDa
Source organism: Aspergillus fumigatus Af293
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q7Z8P9 (Residues: 1-153; Coverage: 100%)
Gene names: AFUA_5G03490, ndk1
Sequence domains: Nucleoside diphosphate kinase

Ligands and Environments

2 bound ligands:
Ligand MG 3 x MG
Ligand IDP 3 x IDP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX1
Unit cell:
a: 52.9Å b: 70.307Å c: 119.133Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.178 0.227
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Targeting Unconventional Pathways in Pursuit of Novel Antifungals.
Nguyen et al. (2020)
3 other articles

1 mention without citation

Nucleoside selectivity of Aspergillus fumigatus nucleoside-diphosphate kinase.
Nguyen et al. (2021)