SMTL ID : 4trj.1

Crystal structure of Mycobacterium tuberculosis enoyl reductase (INHA) complexed with N-(3-bromophenyl)-1-cyclohexyl-5-oxopyrrolidine-3-carboxamide, refined with new ligand restraints

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 29 residues within 4Å: Chain A: G.14, I.15, I.16, S.20, I.21, A.22, F.41, L.63, D.64, V.65, Q.66, S.94, I.95, G.96, F.97, I.122, M.147, D.148, F.149, Y.158, M.161, K.165, A.191, G.192, P.193, I.194, T.196, M.199 Ligands: 665.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:I.21, A:F.149, A:A.191 Hydrogen bonds: A:G.14, A:I.21, A:D.64, A:V.65, A:I.95, A:G.96, A:K.165, A:I.194, A:I.194, A:T.196, A:T.196 Water bridges: A:F.41, A:F.41, A:F.41, A:S.94, A:S.94, A:I.95 pi-Stacking: A:F.41 NAD.3: 29 residues within 4Å: Chain B: G.14, I.15, I.16, S.20, I.21, A.22, F.41, L.63, D.64, V.65, Q.66, S.94, I.95, G.96, F.97, I.122, M.147, D.148, F.149, Y.158, M.161, K.165, A.191, G.192, P.193, I.194, T.196, M.199 Ligands: 665.4 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:I.21, B:F.149, B:A.191 Hydrogen bonds: B:G.14, B:I.21, B:D.64, B:V.65, B:I.95, B:G.96, B:K.165, B:I.194, B:I.194, B:T.196, B:T.196 Water bridges: B:F.41, B:F.41, B:F.41, B:S.94, B:S.94, B:I.95 pi-Stacking: B:F.41 NAD.5: 29 residues within 4Å: Chain C: G.14, I.15, I.16, S.20, I.21, A.22, F.41, L.63, D.64, V.65, Q.66, S.94, I.95, G.96, F.97, I.122, M.147, D.148, F.149, Y.158, M.161, K.165, A.191, G.192, P.193, I.194, T.196, M.199 Ligands: 665.6 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:I.21, C:F.149, C:A.191 Hydrogen bonds: C:G.14, C:I.21, C:D.64, C:D.64, C:V.65, C:I.95, C:G.96, C:K.165, C:I.194, C:I.194, C:T.196, C:T.196 Water bridges: C:F.41, C:F.41, C:F.41, C:S.94, C:S.94, C:I.95 pi-Stacking: C:F.41 NAD.7: 29 residues within 4Å: Chain D: G.14, I.15, I.16, S.20, I.21, A.22, F.41, L.63, D.64, V.65, Q.66, S.94, I.95, G.96, F.97, I.122, M.147, D.148, F.149, Y.158, M.161, K.165, A.191, G.192, P.193, I.194, T.196, M.199 Ligands: 665.8 22 PLIP interactions: 22 interactions with chain D Hydrophobic interactions: D:I.21, D:F.149, D:A.191 Hydrogen bonds: D:G.14, D:I.21, D:D.64, D:D.64, D:V.65, D:I.95, D:G.96, D:K.165, D:I.194, D:I.194, D:T.196, D:T.196 Water bridges: D:F.41, D:F.41, D:F.41, D:S.94, D:S.94, D:I.95 pi-Stacking: D:F.41

4 x 665: (3S)-N-(3-BROMOPHENYL)-1-CYCLOHEXYL-5-OXOPYRROLIDINE-3-CARBOXAMIDE(Non-covalent)

665.2: 19 residues within 4Å: Chain A: G.96, F.97, M.98, M.103, G.104, F.149, M.155, P.156, A.157, Y.158, M.161, K.165, M.199, I.202, L.207, A.211, I.215, L.218 Ligands: NAD.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.157, A:Y.158, A:Y.158, A:I.215, A:I.215, A:L.218 Hydrogen bonds: A:Y.158 665.4: 19 residues within 4Å: Chain B: G.96, F.97, M.98, M.103, G.104, F.149, M.155, P.156, A.157, Y.158, M.161, K.165, M.199, I.202, L.207, A.211, I.215, L.218 Ligands: NAD.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:A.157, B:Y.158, B:Y.158, B:I.215, B:I.215, B:L.218 Hydrogen bonds: B:Y.158 665.6: 19 residues within 4Å: Chain C: G.96, F.97, M.98, M.103, G.104, F.149, M.155, P.156, A.157, Y.158, M.161, K.165, M.199, I.202, L.207, A.211, I.215, L.218 Ligands: NAD.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:A.157, C:Y.158, C:Y.158, C:I.215, C:I.215, C:L.218 Hydrogen bonds: C:Y.158 665.8: 19 residues within 4Å: Chain D: G.96, F.97, M.98, M.103, G.104, F.149, M.155, P.156, A.157, Y.158, M.161, K.165, M.199, I.202, L.207, A.211, I.215, L.218 Ligands: NAD.7 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:A.157, D:Y.158, D:Y.158, D:I.215, D:I.215, D:L.218 Hydrogen bonds: D:Y.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, X. et al., Pyrrolidine carboxamides as a novel class of inhibitors of enoyl acyl carrier protein reductase from Mycobacterium tuberculosis. J. Med. Chem. (2006)

Release Date

2014-08-13

Peptides

Enoyl-[acyl-carrier-protein] reductase [NADH]: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Enoyl-[acyl-carrier-protein] reductase [NADH]

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