SMTL ID : 6aa5.1 (1 other biounit)

Crystal structure of MTH1 in complex with 3-isomangostin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x MKU: 5,9-dihydroxy-8-methoxy-2,2-dimethyl-7-(3-methylbut-2-en-1-yl)-3,4-dihydro-2H,6H-pyrano[3,2-b]xanthen-6-one(Non-covalent)

MKU.1: 14 residues within 4Å: Chain A: Y.6, T.7, L.8, F.26, N.32, F.71, F.73, M.80, W.116, D.118, D.119, F.138, G.140, Q.141 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.6, A:F.26, A:F.71, A:F.71, A:F.73, A:F.73, A:W.116, A:W.116, A:F.138, A:Q.141 Hydrogen bonds: A:N.32, A:D.118 pi-Stacking: A:W.116, A:W.116, A:W.116, A:F.138, A:F.138

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: L.5, D.81, H.83, H.158, H.160 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.81, A:H.83, A:H.158, A:H.160 ZN.3: 2 residues within 4Å: Chain A: E.40, H.163 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.40, A:E.40, A:H.163 ZN.4: 3 residues within 4Å: Chain A: H.64, C.86, T.87 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.64, A:C.86, H2O.4

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 5 residues within 4Å: Chain A: H.159, H.160, H.161, H.162, H.163 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.161, A:H.162, A:H.163 Salt bridges: A:H.160, A:H.161, A:H.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Discovery of a new class of MTH1 inhibitor by X-ray crystallographic screening. Eur J Med Chem (2019)

Release Date

2019-03-06

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

7,8-dihydro-8-oxoguanine triphosphatase

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