SMTL ID : 8gyd.1

Structure of Schistosoma japonicum Glutathione S-transferase bound with the ligand complex of 16

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

3 x 0IH: (2R)-2-[[2-(5-chloranylthiophen-2-yl)-4-oxidanylidene-6-[2-(1H-1,2,3,4-tetrazol-5-yl)phenyl]quinazolin-3-yl]methyl]-3-(4-chlorophenyl)propanoic acid(Non-covalent)

0IH.1: 17 residues within 4Å: Chain A: Y.21, W.22, I.24, G.26, L.27, R.49, R.117, Y.118, S.121, R.122, Y.125, Q.218, G.219, W.220, Q.221, A.222 Chain B: R.122 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.22, A:I.24, A:L.27, A:Y.125, A:Y.125 Hydrogen bonds: A:Q.221, A:A.222 pi-Stacking: A:W.22, A:W.220 Halogen bonds: A:R.117 0IH.9: 18 residues within 4Å: Chain A: Y.118, R.122 Chain B: Y.21, W.22, I.24, G.26, L.27, R.49, R.117, Y.118, S.121, R.122, Y.125, Q.218, G.219, W.220, Q.221, A.222 12 PLIP interactions: 1 interactions with chain A, 11 interactions with chain B pi-Cation interactions: A:R.122 Hydrophobic interactions: B:W.22, B:I.24, B:L.27, B:Y.125 Hydrogen bonds: B:Y.125, B:Q.221, B:A.222 pi-Stacking: B:W.22, B:W.220 Halogen bonds: B:R.117, B:Y.118 0IH.10: 9 residues within 4Å: Chain B: I.18, H.45, Y.47, K.54, K.58, E.61, L.62, Y.71, K.78 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:I.18, B:K.58, B:L.62, B:L.62 Hydrogen bonds: B:Y.47, B:Y.71 Water bridges: B:L.46 Salt bridges: B:H.45, B:K.58 pi-Stacking: B:H.45 pi-Cation interactions: B:K.54, B:K.58, B:K.58

10 x EOH: ETHANOL(Non-functional Binders)

EOH.2: 5 residues within 4Å: Chain A: L.27, S.82, M.83 Ligands: EOH.4, EOH.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.115 EOH.3: 3 residues within 4Å: Chain A: R.49, G.227, D.228 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.49, A:R.49, A:D.228 EOH.4: 7 residues within 4Å: Chain A: L.27, N.68, P.70, Q.81, S.82 Chain B: D.115 Ligands: EOH.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.27 Hydrogen bonds: A:S.82, A:S.82 Water bridges: A:M.83 EOH.5: 3 residues within 4Å: Chain A: Y.37, H.161, V.162 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.37, A:Y.37, A:V.162 EOH.6: 3 residues within 4Å: Chain A: G.98, P.100, R.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.103 EOH.7: 5 residues within 4Å: Chain A: L.114, D.115, Y.118 Chain B: Y.118 Ligands: EOH.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.114, A:Y.118 EOH.8: 6 residues within 4Å: Chain A: M.83, L.114 Chain B: M.83, L.114 Ligands: EOH.2, EOH.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.114 EOH.11: 6 residues within 4Å: Chain B: L.27, N.68, L.69, P.70, Q.81, S.82 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.27 Hydrogen bonds: B:S.82, B:S.82 Water bridges: B:M.83 EOH.12: 4 residues within 4Å: Chain B: Y.37, Y.156, H.161, V.162 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.162 EOH.13: 2 residues within 4Å: Chain B: G.98, R.103 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.98, B:R.103, B:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wen, X. et al., Discovery, SAR Study of GST Inhibitors from a Novel Quinazolin-4(1 H )-one Focused DNA-Encoded Library. J.Med.Chem. (2023)

Release Date

2023-08-23

Peptides

Glutathione S-transferase class-mu 26 kDa isozyme: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutathione S-transferase class-mu 26 kDa isozyme