SMTL ID : 4cod.1

Encoded library technology as a source of hits for the discovery and lead optimization of a potent and selective class of bactericidal direct inhibitors of Mycobacterium tuberculosis InhA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x KV1: N-((3R,5S)-1-(benzofuran-3-carbonyl)-5-(ethylcarbamoyl)pyrrolidin-3-yl)-3-ethyl-1-methyl-1H-pyrazole-5-carboxamide(Non-covalent)

KV1.1: 17 residues within 4Å: Chain A: G.96, F.97, M.98, M.103, G.104, F.149, A.157, Y.158, M.161, L.197, A.198, M.199, S.200, A.201, I.202, L.207 Ligands: NAD.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.149, A:A.157, A:Y.158, A:L.197, A:A.198, A:I.202, A:I.202 Hydrogen bonds: A:M.98, A:L.197, A:A.198, A:A.201, A:I.202 pi-Stacking: A:Y.158 KV1.3: 18 residues within 4Å: Chain B: G.96, F.97, M.98, M.103, G.104, F.149, A.157, Y.158, M.161, L.197, A.198, M.199, S.200, A.201, I.202, L.207, I.215 Ligands: NAD.4 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.149, B:A.157, B:Y.158, B:L.197, B:A.198, B:I.202, B:I.202, B:I.215 Hydrogen bonds: B:M.98, B:L.197, B:A.198, B:A.201, B:I.202 pi-Stacking: B:Y.158 KV1.6: 18 residues within 4Å: Chain C: G.96, F.97, M.98, M.103, G.104, F.149, A.157, Y.158, M.161, L.197, A.198, M.199, S.200, A.201, I.202, L.207, I.215 Ligands: NAD.5 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:F.149, C:A.157, C:Y.158, C:A.198, C:I.202, C:I.202, C:I.202, C:I.215 Hydrogen bonds: C:M.98, C:L.197, C:A.198, C:A.201, C:I.202 pi-Stacking: C:Y.158 KV1.7: 18 residues within 4Å: Chain D: G.96, F.97, M.98, M.103, G.104, F.149, A.157, Y.158, M.161, L.197, A.198, M.199, S.200, A.201, I.202, L.207, I.215 Ligands: NAD.8 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:F.149, D:A.157, D:Y.158, D:A.198, D:I.202, D:I.202, D:I.215 Hydrogen bonds: D:M.98, D:L.197, D:A.198, D:A.201, D:I.202 pi-Stacking: D:Y.158

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

NAD.2: 25 residues within 4Å: Chain A: G.14, I.15, I.16, S.20, I.21, F.41, L.63, D.64, V.65, S.94, I.95, G.96, I.122, M.147, D.148, F.149, K.165, A.191, G.192, P.193, I.194, T.196, A.198, M.199 Ligands: KV1.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:I.21, A:F.149, A:F.149 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:A.198 Water bridges: A:G.14, A:A.22, A:I.95 pi-Stacking: A:F.41 NAD.4: 26 residues within 4Å: Chain B: G.14, I.15, I.16, S.20, I.21, F.41, L.63, D.64, V.65, S.94, I.95, G.96, I.122, M.147, D.148, F.149, K.165, A.191, G.192, P.193, I.194, T.196, L.197, A.198, M.199 Ligands: KV1.3 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:F.149, B:F.149 Hydrogen bonds: B:G.14, B:S.20, B:I.21, B:D.64, 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, B:A.198 Water bridges: B:G.14, B:F.41 pi-Stacking: B:F.41 NAD.5: 27 residues within 4Å: Chain C: G.14, I.15, I.16, S.20, I.21, F.41, L.63, D.64, V.65, Q.66, S.94, I.95, G.96, I.122, M.147, D.148, F.149, K.165, A.191, G.192, P.193, I.194, T.196, L.197, A.198, M.199 Ligands: KV1.6 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:I.21, C:F.149, 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:A.198 Water bridges: C:A.22, C:I.95, C:L.197, C:L.197 pi-Stacking: C:F.41 NAD.8: 26 residues within 4Å: Chain D: G.14, I.15, I.16, S.20, I.21, F.41, L.63, D.64, V.65, S.94, I.95, G.96, I.122, M.147, D.148, F.149, K.165, A.191, G.192, P.193, I.194, T.196, L.197, A.198, M.199 Ligands: KV1.7 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:F.149, D:F.149, D:A.191 Hydrogen bonds: D:G.14, D:I.15, D:I.21, D:D.64, D:V.65, D:Q.66, D:I.95, D:G.96, D:K.165, D:I.194, D:I.194, D:A.198 Water bridges: D:A.22, D:I.95, D:L.197, D:L.197 pi-Stacking: D:F.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Encinas, L. et al., Encoded Library Technology as a Source of Hits for the Discovery and Lead Optimization of a Potent and Selective Class of Bactericidal Direct Inhibitors of Mycobacterium Tuberculosis Inha. J.Med.Chem. (2014)

Release Date

2014-02-12

Peptides

ENOYL-[ACYL-CARRIER-PROTEIN] REDUCTASE [NADH]: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

C
F

D
H

ENOYL-[ACYL-CARRIER-PROTEIN] REDUCTASE [NADH]

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