SMTL ID : 2wpe.2 (1 other biounit)

Trypanosoma brucei trypanothione reductase in complex with 3,4- dihydroquinazoline inhibitor (DDD00073359)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 36 residues within 4Å: Chain A: I.13, G.14, G.16, S.17, G.18, V.37, D.38, V.39, A.49, A.50, G.53, T.54, C.55, V.58, G.59, C.60, K.63, G.128, W.129, G.130, A.162, T.163, G.164, F.201, I.202, R.290, R.293, G.329, D.330, M.336, L.337, T.338, P.339, A.341 Chain B: H.464, P.465 35 PLIP interactions: 33 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.54, A:I.202, A:I.202 Hydrogen bonds: A:S.17, A:S.17, A:G.18, A:V.39, A:A.49, A:A.50, A:G.53, A:T.54, A:C.55, A:K.63, A:G.130, A:G.130, A:D.330, A:M.336, A:T.338, A:T.338, A:T.338, B:H.464 Water bridges: A:G.16, A:S.17, A:G.19, A:A.49, A:G.52, A:T.54, A:T.54, A:G.164, A:S.165, A:A.341, A:A.368, B:H.464 pi-Stacking: A:F.201, A:F.201 FAD.9: 37 residues within 4Å: Chain A: H.464, P.465 Chain B: I.13, G.14, G.16, S.17, G.18, V.37, D.38, V.39, A.49, A.50, G.53, T.54, C.55, V.58, G.59, C.60, K.63, G.128, W.129, G.130, A.162, T.163, G.164, S.181, F.201, I.202, R.290, R.293, G.329, D.330, M.336, L.337, T.338, P.339, A.341 30 PLIP interactions: 28 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.54, B:I.202 Hydrogen bonds: B:G.14, B:S.17, B:S.17, B:G.18, B:G.19, B:V.39, B:A.49, B:G.53, B:T.54, B:T.54, B:C.55, B:K.63, B:G.130, B:G.130, B:D.330, B:M.336, B:T.338, B:T.338, A:H.464 Water bridges: B:G.16, B:G.164, B:G.164, B:S.165, B:S.165, B:A.341, A:H.464 pi-Stacking: B:F.201, B:F.201

2 x WPE: N-{2-[(4S)-6-CHLORO-2-METHYL-4-PHENYLQUINAZOLIN-3(4H)-YL]ETHYL}FURAN-2-CARBOXAMIDE(Non-covalent)

WPE.2: 9 residues within 4Å: Chain A: S.17, L.20, E.21, W.24, G.52, Y.113, M.116, F.117, I.342 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.20, A:L.20, A:L.20, A:W.24, A:W.24, A:W.24, A:W.24, A:Y.113, A:M.116, A:F.117, A:I.342 pi-Stacking: A:Y.113 Halogen bonds: A:G.52 WPE.10: 10 residues within 4Å: Chain B: G.16, S.17, L.20, E.21, W.24, G.52, Y.113, M.116, F.117, I.342 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.20, B:L.20, B:L.20, B:L.20, B:E.21, B:W.24, B:W.24, B:W.24, B:Y.113, B:M.116, B:F.117, B:I.342 Hydrogen bonds: B:E.21 pi-Stacking: B:W.24, B:Y.113 Halogen bonds: B:G.52

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 3 residues within 4Å: Chain A: Y.458, T.460, C.472 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.472 Water bridges: A:G.462 NA.11: 3 residues within 4Å: Chain B: Y.458, T.460, C.472 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.460

9 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: G.198, Y.224, R.225 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: N.94, W.95, K.96, P.190 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: I.202, A.287, G.289 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: N.227, L.228, R.231, R.238 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain B: N.94, W.95, K.96, P.190 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: G.198, Y.224, R.225, I.288 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain B: N.227, L.228, R.231, R.238 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain B: P.438 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain B: I.202, A.287, G.289, R.290 Ligand excluded by PLIP

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.8: 5 residues within 4Å: Chain A: W.166, M.169, C.178, S.180, E.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.180, A:S.180 Water bridges: A:N.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patterson, S. et al., Dihydroquinazolines as a Novel Class of Trypanosoma Brucei Trypanothione Reductase Inhibitors: Discovery, Synthesis, and Characterization of Their Binding Mode by Protein Crystallography. J.Med.Chem. (2011)

Release Date

2010-10-13

Peptides

TRYPANOTHIONE REDUCTASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TRYPANOTHIONE REDUCTASE

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