SMTL ID : 6aa3.2 (1 other biounit)

Crystal structure of MTH1 in apo form (cocktail No. 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: L.5, D.81, H.83, H.158, H.160 Chain B: H.158 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.81, A:D.81, A:H.83, A:H.158, A:H.160 ZN.2: 4 residues within 4Å: Chain A: E.40, H.163 Chain B: H.161, H.162 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Metal complexes: B:H.161, B:H.162, A:E.40, A:E.40, A:H.163 ZN.3: 3 residues within 4Å: Chain A: H.64, C.86, T.87 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.64, A:C.86 ZN.5: 6 residues within 4Å: Chain A: H.158 Chain B: L.5, D.81, H.83, H.158, H.160 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.81, B:D.81, B:H.83, B:H.158, B:H.160 ZN.6: 4 residues within 4Å: Chain A: H.161, H.162 Chain B: E.40, H.163 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:E.40, B:E.40, B:H.163, A:H.161, A:H.162 ZN.7: 3 residues within 4Å: Chain B: H.64, C.86, T.87 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.64, B:C.86

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

SO4.4: 10 residues within 4Å: Chain A: H.160, H.161, H.162, H.163 Chain B: H.159, H.160, H.161, H.162, H.163 Ligands: SO4.8 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:H.161, A:H.162, B:H.159, B:H.161, B:H.162 Salt bridges: A:H.160, A:H.161, A:H.162, B:H.160, B:H.161, B:H.162 SO4.8: 10 residues within 4Å: Chain A: H.159, H.160, H.161, H.162, H.163 Chain B: H.160, H.161, H.162, H.163 Ligands: SO4.4 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:H.159, A:H.161, A:H.162, B:H.161, B:H.162 Salt bridges: A:H.160, A:H.161, A:H.162, B:H.160, B:H.161, B: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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

7,8-dihydro-8-oxoguanine triphosphatase

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