› 8i1f

X-ray diffraction
1.05Å resolution

Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP at pH 8.6

Released:
DOI: 10.2210/pdb8i1f/pdb
PDB entry 8i1f coloured by chain, front view.
PDB entry 8i1f coloured by chain, side view.
PDB entry 8i1f coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Nakamura T, Koga-Ogawa Y, Fujimiya K, Chirifu M, Goto M, Ikemizu S, Nakabeppu Y, Yamagata Y
FEBS Lett (2023)
PMID: 36914375

Function and Biology Details

Reaction catalysed: 
2-hydroxy-dATP + H(2)O = 2-hydroxy-dAMP + diphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153202 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Oxidized purine nucleoside triphosphate hydrolase Chains: A, B
Molecule details ›
Chains: A, B
Length: 156 amino acids
Theoretical weight: 18.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P36639 (Residues: 1-156; Coverage: 100%)
Gene names: MTH1, NUDT1
Sequence domains: NUDIX domain

Ligands and Environments

2 bound ligands:
Ligand 6U4 2 x 6U4
Ligand NA 6 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P212121
Unit cell:
a: 45.978Å b: 47.933Å c: 124.048Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.143 0.142 0.162
Expression system: Escherichia coli

Quick links