5qjm

X-ray diffraction
1.75Å resolution

PanDDA analysis group deposition of models with modelled events (e.g. bound ligands) -- Crystal Structure of NUDT5 in complex with Z328695024

Released:
Source organism: Homo sapiens
Entry authors: Dubianok Y, Collins P, Krojer T, Wright N, Strain-Damerell C, Burgess-Brown N, Bountra C, Arrowsmith CH, Edwards A, Huber K, von Delft F

Function and Biology Details

Reactions catalysed:
ATP + D-ribose 5-phosphate = diphosphate + ADP-D-ribose
ADP-D-ribose + H(2)O = AMP + D-ribose 5-phosphate
8-oxo-GDP + H(2)O = 8-oxo-GMP + phosphate
Biochemical function:
Cellular component:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
ADP-sugar pyrophosphatase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 209 amino acids
Theoretical weight: 23.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UKK9 (Residues: 1-208; Coverage: 95%)
Gene names: HSPC115, NUDIX5, NUDT5
Sequence domains: NUDIX domain
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase

Ligands and Environments

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P1
Unit cell:
a: 49.637Å b: 59.95Å c: 80.267Å
α: 79.09° β: 81.28° γ: 75.44°
R-values:
R R work R free
0.225 0.222 0.271
Expression system: Escherichia coli