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

Trypanosoma brucei trypanothione reductase with bound NADP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 21 residues within 4Å: Chain A: K.63, G.198, G.199, G.200, F.201, I.202, E.205, Y.224, R.225, N.226, R.231, N.257, A.287, I.288, G.289, R.290, M.336, L.337, A.368, F.370 Ligands: FAD.2 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:F.201, A:F.201, A:I.202 Hydrogen bonds: A:K.63, A:G.199, A:G.199, A:F.201, A:I.202, A:E.205, A:Y.224, A:Y.224, A:R.225, A:N.257, A:A.287, A:G.289 Water bridges: A:L.230, A:R.231, A:M.336, A:A.368 Salt bridges: A:R.225, A:R.231 pi-Cation interactions: A:R.225, A:R.225 NDP.5: 20 residues within 4Å: Chain B: K.63, G.198, G.199, G.200, F.201, I.202, E.205, Y.224, R.225, N.226, R.231, N.257, A.287, I.288, G.289, M.336, L.337, A.368, F.370 Ligands: FAD.6 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:F.201, B:F.201, B:I.202 Hydrogen bonds: B:K.63, B:G.199, B:G.199, B:F.201, B:I.202, B:E.205, B:Y.224, B:R.225, B:N.257, B:A.287, B:G.289 Water bridges: B:G.200, B:S.203, B:L.230, B:R.231, B:R.231, B:R.231, B:M.336, B:A.368 Salt bridges: B:R.225, B:R.231 pi-Cation interactions: B:R.225, B:R.225

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

FAD.2: 38 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, I.202, R.290, R.293, L.297, G.329, D.330, M.336, L.337, T.338, P.339, A.341, F.370 Chain B: H.464, P.465 Ligands: NDP.1 30 PLIP interactions: 28 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.202, A:I.202 Hydrogen bonds: A:G.14, A:S.17, A:S.17, A:G.18, A:G.19, A:V.39, A:A.49, A:A.50, A:G.53, A:T.54, A:T.54, A:C.55, A:K.63, A:G.130, A:G.130, A:R.293, A:D.330, A:D.330, A:M.336, A:T.338, A:T.338, A:T.338, B:H.464 Water bridges: A:G.16, A:G.164, A:S.165, A:I.331, B:H.464 FAD.6: 39 residues within 4Å: Chain A: H.464, P.465 Chain B: I.13, G.14, A.15, 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, I.202, R.290, R.293, G.329, D.330, M.336, L.337, T.338, P.339, A.341, F.370 Ligands: NDP.5 27 PLIP interactions: 26 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.54, B:I.202 Hydrogen bonds: B:G.14, B:A.15, B:S.17, B:G.18, B:V.39, B:A.49, B:A.50, B:G.53, B:T.54, 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

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

NA.3: 3 residues within 4Å: Chain A: Y.458, T.460, C.472 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.458 NA.4: 4 residues within 4Å: Chain A: F.117, T.120, L.123, D.124 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.124, A:D.124 NA.7: 3 residues within 4Å: Chain B: Y.458, T.460, C.472 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:C.472 NA.8: 4 residues within 4Å: Chain B: F.117, T.120, L.123, D.124 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.122, B:L.123, B:D.124

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

2010-08-04

Peptides

TRYPANOTHIONE REDUCTASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

TRYPANOTHIONE REDUCTASE

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