SMTL ID : 4uvr.1

Binding mode, selectivity and potency of N-indolyl-oxopyridinyl-4- amino-propanyl-based inhibitors targeting Trypanosoma cruzi CYP51

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 25 residues within 4Å: Chain A: Y.96, L.107, L.110, L.114, A.268, A.271, G.272, T.275, S.276, T.279, P.335, L.336, V.339, R.341, I.393, G.394, F.395, G.396, H.400, K.401, C.402, I.403, G.404, A.408 Ligands: J5Y.2 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:L.110, A:L.114, A:A.271, A:P.335, A:V.339, A:F.395, A:I.403, A:I.403, A:A.408 Hydrogen bonds: A:Y.96, A:Y.96 Water bridges: A:R.341 Salt bridges: A:R.341, A:H.400 Metal complexes: A:C.402 HEM.7: 25 residues within 4Å: Chain B: Y.96, L.107, L.110, L.114, A.268, A.271, G.272, T.275, S.276, T.279, P.335, L.336, V.339, R.341, I.393, G.394, F.395, G.396, H.400, K.401, C.402, I.403, G.404, A.408 Ligands: J5Y.8 14 PLIP interactions: 14 interactions with chain B, Hydrophobic interactions: B:L.110, B:L.114, B:A.271, B:P.335, B:V.339, B:F.395, B:I.403, B:I.403, B:A.408 Hydrogen bonds: B:Y.96 Water bridges: B:R.341 Salt bridges: B:R.341, B:H.400 Metal complexes: B:C.402

2 x J5Y: NALPHA-{4-[4-(5-CHLORO-2-METHYLPHENYL)PIPERAZIN-1-YL]-2-FLUOROBENZOYL}-N-PYRIDIN-4-YL-D-TRYPTOPHANAMIDE(Non-covalent)

J5Y.2: 18 residues within 4Å: Chain A: F.28, V.57, Y.83, I.85, M.86, Y.96, P.190, F.194, F.270, A.271, T.275, L.336, M.338, M.340, A.361, M.440, V.441 Ligands: HEM.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.28, A:F.28, A:F.28, A:Y.96, A:F.270, A:T.275, A:L.336, A:M.440 pi-Stacking: A:Y.83, A:F.194 J5Y.8: 18 residues within 4Å: Chain B: F.28, V.57, Y.83, I.85, M.86, Y.96, P.190, F.194, F.270, A.271, T.275, L.336, M.338, M.340, A.361, M.440, V.441 Ligands: HEM.7 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.28, B:F.28, B:F.28, B:Y.96, B:F.270, B:T.275, B:L.336, B:M.440 Water bridges: B:Y.83 pi-Stacking: B:Y.83, B:F.194

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

SO4.3: 6 residues within 4Å: Chain A: F.119, Q.120, N.121, P.124, N.311, Y.312 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.121, A:F.122, A:Y.312 SO4.4: 5 residues within 4Å: Chain A: S.257, L.258 Chain B: S.257, L.258 Ligands: SO4.10 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.258, A:L.258 Water bridges: B:H.259, B:H.259 SO4.5: 5 residues within 4Å: Chain A: G.91, E.92, R.210, R.213, H.259 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.92 Salt bridges: A:R.213, A:H.259 SO4.6: 4 residues within 4Å: Chain A: R.327, F.392, K.401, Q.405 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.405 Water bridges: A:R.327 Salt bridges: A:R.327, A:K.401 SO4.9: 6 residues within 4Å: Chain B: F.119, Q.120, N.121, P.124, N.311, Y.312 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.121, B:F.122, B:Y.312 SO4.10: 5 residues within 4Å: Chain A: S.257, L.258 Chain B: S.257, L.258 Ligands: SO4.4 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:L.258, A:L.258 Water bridges: A:H.259, A:H.259 SO4.11: 5 residues within 4Å: Chain B: G.91, E.92, R.210, R.213, H.259 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.92 Salt bridges: B:R.213, B:H.259 SO4.12: 4 residues within 4Å: Chain B: R.327, F.392, K.401, Q.405 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.405 Water bridges: B:R.327 Salt bridges: B:R.327, B:K.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vieira, D.F. et al., Binding Mode and Potency of N-Indolyl-Oxopyridinyl-4-Amino-Propanyl-Based Inhibitors Targeting Trypanosoma Cruzi Cyp51. J.Med.Chem. (2014)

Release Date

2014-11-26

Peptides

STEROL 14-DEMETHYLASE, CYP51: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

STEROL 14-DEMETHYLASE, CYP51

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