SMTL ID : 6imz.1

Crystal structure of MTH1 in complex with 18-Crown-6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.81, H.83, H.158, H.160 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: 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.6: 4 residues within 4Å: Chain A: H.64, C.86, T.87, K.129 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.64, A:C.86, H2O.3

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

SO4.3: 4 residues within 4Å: Chain A: H.160, H.161, H.162, H.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.161, A:H.162 Salt bridges: A:H.160, A:H.161

2 x O4B: 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE(Non-covalent)

O4B.4: 5 residues within 4Å: Chain A: E.72, V.74, Y.135, K.137, D.146 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.137 O4B.7: 4 residues within 4Å: Chain A: Q.128, K.129, K.130, E.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.130

1 x VGH: 3-[(1R)-1-(2,6-dichloro-3-fluorophenyl)ethoxy]-5-(1-piperidin-4-yl-1H-pyrazol-4-yl)pyridin-2-amine(Non-covalent)

VGH.5: 13 residues within 4Å: Chain A: Y.6, L.8, F.26, N.32, F.71, F.73, M.80, V.82, W.116, D.118, D.119, G.140, Q.141 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.6, A:F.26, A:N.32, A:F.73, A:W.116 Hydrogen bonds: A:D.118, A:G.140 pi-Stacking: A:W.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Crown Ethers as Transthyretin Amyloidogenesis Inhibitor. To Be Published

Release Date

2019-10-30

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

7,8-dihydro-8-oxoguanine triphosphatase

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