SMTL ID : 6r9w.1 (1 other biounit)

Crystal structure of InhA in complex with AP-124 inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

2 x JVZ: (2~{S})-1-(benzimidazol-1-yl)-3-(2,3-dihydro-1~{H}-inden-5-yloxy)propan-2-ol(Non-covalent)

JVZ.1: 17 residues within 4Å: Chain A: Q.103, M.106, G.107, F.152, M.158, P.159, A.160, Y.161, A.201, M.202, I.205, L.210, A.214, Q.217, I.218, L.221 Chain C: L.272 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:M.158, A:A.160, A:Y.161, A:Y.161, A:A.201, A:Q.217, A:I.218, A:L.221, A:L.221 Hydrogen bonds: A:Q.103 JVZ.4: 17 residues within 4Å: Chain A: L.272 Chain C: Q.103, M.106, G.107, F.152, M.158, P.159, A.160, Y.161, A.201, M.202, I.205, L.210, A.214, Q.217, I.218, L.221 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:M.158, C:A.160, C:Y.161, C:Y.161, C:A.201, C:Q.217, C:I.218, C:L.221, C:L.221 Hydrogen bonds: C:Q.103

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

NAD.2: 27 residues within 4Å: Chain A: G.17, I.18, I.19, S.23, I.24, A.25, F.44, L.66, D.67, V.68, Q.69, S.97, I.98, G.99, F.100, I.125, M.150, D.151, F.152, M.164, K.168, A.194, G.195, P.196, I.197, T.199, M.202 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:I.24, A:F.152, A:F.152, A:A.194 Hydrogen bonds: A:S.23, A:I.24, A:D.67, A:D.67, A:V.68, A:I.98, A:G.99, A:K.168, A:I.197, A:I.197, A:T.199 Water bridges: A:I.18, A:F.44, A:F.44, A:S.97, A:S.97, A:I.98, A:G.99 pi-Stacking: A:F.44 NAD.3: 28 residues within 4Å: Chain B: G.17, I.18, I.19, S.23, I.24, A.25, F.44, L.66, D.67, V.68, Q.69, S.97, I.98, G.99, F.100, I.125, M.150, D.151, F.152, Y.161, M.164, K.168, A.194, G.195, P.196, I.197, T.199, M.202 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:F.152, B:A.194 Hydrogen bonds: B:S.23, B:I.24, B:D.67, B:D.67, B:V.68, B:I.98, B:G.99, B:K.168, B:I.197, B:I.197 Water bridges: B:I.18, B:T.20, B:F.44, B:F.44, B:S.97, B:S.97, B:I.98, B:T.199 pi-Stacking: B:F.44 NAD.5: 27 residues within 4Å: Chain C: G.17, I.18, I.19, S.23, I.24, A.25, F.44, L.66, D.67, V.68, Q.69, S.97, I.98, G.99, F.100, I.125, M.150, D.151, F.152, M.164, K.168, A.194, G.195, P.196, I.197, T.199, M.202 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:I.24, C:F.152, C:F.152, C:A.194 Hydrogen bonds: C:S.23, C:I.24, C:D.67, C:V.68, C:I.98, C:G.99, C:K.168, C:I.197, C:I.197, C:T.199 Water bridges: C:I.18, C:F.44, C:F.44, C:S.97, C:S.97, C:I.98, C:G.99 pi-Stacking: C:F.44 NAD.6: 28 residues within 4Å: Chain D: G.17, I.18, I.19, S.23, I.24, A.25, F.44, L.66, D.67, V.68, Q.69, S.97, I.98, G.99, F.100, I.125, M.150, D.151, F.152, Y.161, M.164, K.168, A.194, G.195, P.196, I.197, T.199, M.202 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:F.152, D:A.194 Hydrogen bonds: D:S.23, D:I.24, D:D.67, D:V.68, D:I.98, D:G.99, D:K.168, D:I.197, D:I.197 Water bridges: D:I.18, D:T.20, D:F.44, D:F.44, D:S.97, D:S.97, D:I.98, D:T.199 pi-Stacking: D:F.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kamsri, P. et al., Discovery of New and Potent InhA Inhibitors as Antituberculosis Agents: Structure-Based Virtual Screening Validated by Biological Assays and X-ray Crystallography. J.Chem.Inf.Model. (2020)

Release Date

2019-12-25

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

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

Related Entries With Identical Sequence