SMTL ID : 9mbf.1 (1 other biounit)

Neutron crystal structure of human MTH1(G2K/C87A/C104S mutant) in complex with 2-oxo-dATP

Coordinates

PDB Format Compare

Method

NEUTRON DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x 6U4: [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate(Covalent)

6U4.1: 19 residues within 4Å: Chain A: Y.7, T.8, L.9, N.33, G.36, G.37, K.38, E.52, F.72, F.74, M.81, V.83, W.117, D.119, D.120, W.123, F.139 Ligands: NA.2, NA.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:T.8, A:N.33, A:G.37, A:K.38, A:D.119, A:D.119, A:D.120 Water bridges: A:Y.7, A:K.23, A:K.23, A:G.36, A:K.38, A:K.38, A:K.38, A:K.38, A:K.38, A:K.38, A:R.51 Salt bridges: A:K.38, A:K.38

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 1 residues within 4Å: Ligands: 6U4.1 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.23 NA.3: 6 residues within 4Å: Chain A: G.37, K.38, Q.40, R.51, E.52 Ligands: 6U4.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.38, A:E.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirata, K. et al., Neutron and time-resolved X-ray crystallography reveal the substrate recognition and catalytic mechanism of human Nudix hydrolase MTH1. Proc.Natl.Acad.Sci.USA (2025)

Release Date

2025-07-30

Peptides

7,8-dihydro-8-oxoguanine triphosphatase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

7,8-dihydro-8-oxoguanine triphosphatase

Related Entries With Identical Sequence