SMTL ID : 6t98.1

Trypanothione Reductase from Leishmania infantum in complex with 9a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

2 x MWZ: 4-[3-methyl-1-[4-[4-(2-phenylethyl)-1,3-thiazol-2-yl]-3-(2-piperidin-4-ylethoxy)phenyl]-1,2,3-triazol-3-ium-4-yl]butan-1-amine(Non-covalent)

MWZ.1: 10 residues within 4Å: Chain A: E.19, W.22, V.26, S.106, I.107, S.110, M.114, D.117, T.118 Chain B: L.400 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.400, A:W.22, A:I.107 Hydrogen bonds: A:D.117 MWZ.12: 10 residues within 4Å: Chain A: L.400 Chain B: E.19, W.22, V.26, S.106, I.107, S.110, M.114, D.117, T.118 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:W.22, B:I.107, A:L.400

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

SO4.2: 1 residues within 4Å: Chain A: R.4 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.4 SO4.3: 3 residues within 4Å: Chain A: Y.222, R.223, R.229 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.222 Salt bridges: A:R.223, A:R.229 SO4.4: 3 residues within 4Å: Chain A: R.229, G.230, R.236 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.230 Salt bridges: A:R.229, A:R.236 SO4.5: 4 residues within 4Å: Chain A: R.249, R.251, T.275, E.277 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.275, A:E.277 Salt bridges: A:R.249, A:R.251 SO4.6: 4 residues within 4Å: Chain A: Q.38, A.39, T.40, M.125 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.39, A:T.40, A:T.40 SO4.7: 3 residues within 4Å: Chain A: S.471, R.473, T.474 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.473, A:R.473, A:T.474, A:T.474 SO4.13: 1 residues within 4Å: Chain B: R.4 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.4 SO4.14: 3 residues within 4Å: Chain B: Y.222, R.223, R.229 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.223, B:R.229 SO4.15: 3 residues within 4Å: Chain B: R.229, G.230, R.236 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.230 Salt bridges: B:R.229, B:R.236 SO4.16: 4 residues within 4Å: Chain B: R.249, R.251, T.275, E.277 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.249, B:R.251 SO4.17: 4 residues within 4Å: Chain B: Q.38, A.39, T.40, M.125 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.39, B:T.40, B:T.40 SO4.18: 3 residues within 4Å: Chain B: S.471, R.473, T.474 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.473, B:R.473, B:T.474

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 6 residues within 4Å: Chain A: P.1, M.2, S.3, R.4, D.7, E.155 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.3, A:R.4, A:D.7 GOL.9: 7 residues within 4Å: Chain A: G.198, Y.199, I.200, A.285, I.286, G.287, R.288 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.199, A:I.200, A:A.201, A:A.285, A:G.287 GOL.19: 6 residues within 4Å: Chain B: P.1, M.2, S.3, R.4, D.7, E.155 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.3, B:R.4, B:D.7 GOL.20: 7 residues within 4Å: Chain B: G.198, Y.199, I.200, A.285, I.286, G.287, R.288 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.199, B:I.200, B:A.201, B:A.285, B:G.287

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

FAD.10: 36 residues within 4Å: Chain A: G.12, G.14, S.15, G.16, V.35, D.36, V.37, A.47, A.48, G.51, T.52, C.53, V.56, G.57, C.58, K.61, G.126, F.127, G.128, A.160, T.161, G.162, Y.199, I.200, R.288, R.291, L.295, G.327, D.328, M.334, L.335, T.336, P.337, A.339 Chain B: H.462, P.463 26 PLIP interactions: 25 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:T.52, A:K.61, A:I.200 Hydrogen bonds: A:A.13, A:S.15, A:S.15, A:G.16, A:A.48, A:A.48, A:T.52, A:T.52, A:T.52, A:C.53, A:K.61, A:G.128, A:G.128, A:Y.199, A:R.291, A:D.328, A:M.334, A:T.336, A:T.336, B:H.462 Water bridges: A:G.14, A:D.328 pi-Stacking: A:Y.199 FAD.21: 36 residues within 4Å: Chain A: H.462, P.463 Chain B: G.12, G.14, S.15, G.16, V.35, D.36, V.37, A.47, A.48, G.51, T.52, C.53, V.56, G.57, C.58, K.61, G.126, F.127, G.128, A.160, T.161, G.162, Y.199, I.200, R.288, R.291, L.295, G.327, D.328, M.334, L.335, T.336, P.337, A.339 26 PLIP interactions: 25 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.52, B:K.61, B:I.200 Hydrogen bonds: B:A.13, B:S.15, B:S.15, B:G.16, B:A.48, B:A.48, B:T.52, B:T.52, B:C.53, B:K.61, B:G.128, B:G.128, B:R.291, B:D.328, B:M.334, B:T.336, B:T.336, B:T.336, A:H.462 Water bridges: B:G.14, B:T.52, B:T.52 pi-Stacking: B:Y.199

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.11: 3 residues within 4Å: Chain A: L.400, M.401 Chain B: L.63 No protein-ligand interaction detected (PLIP) DMS.22: 3 residues within 4Å: Chain A: L.63 Chain B: L.400, M.401 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Lucio, H. et al., Identification of 1,2,3-triazolium salt-based inhibitors of Leishmania infantum trypanothione disulfide reductase with enhanced antileishmanial potency in cellulo and increased selectivity. Eur.J.Med.Chem. (2022)

Release Date

2020-11-18

Peptides

Trypanothione reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Trypanothione reductase

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