› 4ijx

X-ray diffraction
2.1Å resolution

Crystal structure of human Ap4A hydrolase E58A mutant complexed with DPO

Released:
DOI: 10.2210/pdb4ijx/pdb
PDB entry 4ijx coloured by chain, front view.
PDB entry 4ijx coloured by chain, side view.
PDB entry 4ijx coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of wild-type and mutant human Ap4A hydrolase.
Ge H, Chen X, Yang W, Niu L, Teng M
Biochem Biophys Res Commun 432 16-21 (2013)
PMID: 23384440

Function and Biology Details

Reaction catalysed: 
P(1),P(4)-bis(5'-guanosyl) tetraphosphate + H(2)O = GTP + GMP
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-156229 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Bis(5'-nucleosyl)-tetraphosphatase [asymmetrical] Chains: A, B
Molecule details ›
Chains: A, B
Length: 155 amino acids
Theoretical weight: 17.86 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P50583 (Residues: 1-147; Coverage: 100%)
Gene names: APAH1, NUDT2
Sequence domains: NUDIX domain
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase

Ligands and Environments

4 bound ligands:
Ligand MG 1 x MG
Ligand DPO 1 x DPO
Ligand GOL 1 x GOL
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P43212
Unit cell:
a: 72.369Å b: 72.369Å c: 133.379Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.189 0.232
Expression system: Escherichia coli

Quick links

Citations

6 citation in other articles

The evolution of function within the Nudix homology clan.
Srouji et al. (2017)
5 more

2 mentions without citation

Crystal structure of wild-type and mutant human Ap4A hydrolase.
Ge et al. (2013)
1 more