SMTL ID : 5mzg.1

Crystal structure of mouse MTH1 in complex with TH588

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x 2GE: N~4~-cyclopropyl-6-(2,3-dichlorophenyl)pyrimidine-2,4-diamine(Non-covalent)

2GE.1: 15 residues within 4Å: Chain A: Y.27, T.28, L.29, F.47, N.53, F.92, F.94, M.101, V.103, W.137, D.139, D.140, W.143, F.159 Ligands: SO4.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.27, A:Y.27, A:F.92, A:F.94, A:V.103, A:W.137, A:W.137, A:F.159 Hydrogen bonds: A:N.53, A:N.53, A:D.139 Water bridges: A:G.54 Salt bridges: A:D.139, A:D.140 pi-Stacking: A:W.137 2GE.5: 15 residues within 4Å: Chain B: Y.27, T.28, L.29, K.43, F.47, N.53, F.92, F.94, V.103, W.137, D.139, D.140, W.143, F.159 Ligands: SO4.6 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.27, B:Y.27, B:F.47, B:F.94, B:V.103, B:W.137, B:W.137, B:F.159 Hydrogen bonds: B:N.53, B:N.53, B:D.139 Water bridges: B:G.54 Salt bridges: B:D.139, B:D.140 pi-Stacking: B:W.137

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

SO4.2: 8 residues within 4Å: Chain A: L.29, K.43, N.53, G.54, G.56, E.76, M.121 Ligands: 2GE.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.53, A:G.54, A:G.56 Salt bridges: A:K.43 SO4.6: 9 residues within 4Å: Chain B: L.29, K.43, N.53, G.54, G.56, G.57, E.76, M.121 Ligands: 2GE.5 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.76 Water bridges: B:N.53, B:N.53 Salt bridges: B:K.43 SO4.7: 1 residues within 4Å: Chain B: Q.160 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.160, B:Q.160

4 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.3: 5 residues within 4Å: Chain A: L.128, D.129, Q.130, I.131, F.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.131 SCN.4: 9 residues within 4Å: Chain A: H.89, S.91, C.154, G.155 Chain B: C.154, G.155, H.156, S.169 Ligands: SCN.9 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.91, B:S.169 SCN.8: 3 residues within 4Å: Chain B: P.123, Q.124, W.125 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.125 SCN.9: 7 residues within 4Å: Chain A: G.155, H.156, S.169 Chain B: H.89, S.91, G.155 Ligands: SCN.4 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.91, A:S.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Narwal, M. et al., Crystal Structures and Inhibitor Interactions of Mouse and Dog MTH1 Reveal Species-Specific Differences in Affinity. Biochemistry (2018)

Release Date

2018-01-10

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

7,8-dihydro-8-oxoguanine triphosphatase

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