SMTL ID : 5g0w.1

InhA in complex with a DNA encoded library hit

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 22 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 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:S.20, A:I.21, A:D.64, A:D.64, A:V.65, A:I.95, A:G.96, A:K.165, A:I.194, A:I.194, A:T.196 Water bridges: A:G.14, A:A.22, A:F.41, A:F.41, A:I.95, A:G.96 NAD.3: 23 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 Ligands: 9NU.4 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:I.21, B:F.149, B:F.149, B:A.191 Hydrogen bonds: B:G.14, B:S.20, 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:G.14, B:A.22, B:F.41, B:F.41, B:I.95, B:L.197 pi-Stacking: B:F.41 NAD.5: 23 residues within 4Å: Chain C: 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 Ligands: 9NU.6 21 PLIP interactions: 21 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 Water bridges: C:A.22, C:F.41, C:F.41, C:F.41, C:I.95, C:T.196, C:T.196 NAD.7: 22 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 24 PLIP interactions: 24 interactions with chain D Hydrophobic interactions: D:F.149, D:F.149, D:A.191 Hydrogen bonds: D:G.14, D:S.20, D:I.21, D:D.64, D:V.65, D:I.95, D:G.96, D:K.165, D:I.194, D:I.194, D:T.196 Water bridges: D:T.17, D:T.17, D:A.22, D:F.41, D:F.41, D:F.41, D:I.95, D:G.96, D:T.196 pi-Stacking: D:F.41

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.223, Q.224, A.226 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.223, A:Q.224, A:A.226, H2O.9, H2O.9 MG.8: 3 residues within 4Å: Chain D: D.223, Q.224, A.226 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.223, D:Q.224, D:A.226, H2O.36, H2O.36 MG.9: 3 residues within 4Å: Chain D: G.141, R.185, D.248 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:G.141, D:D.248, H2O.35, H2O.38

2 x 9NU: (2S,4S)-N-methyl-4-[[(2S,3R)-3-[(2-methylpropan-2-yl)oxy]-2-[[4-(pyrazol-1-ylmethyl)phenyl]carbonylamino]butanoyl]amino]-1-(phenylcarbonyl)pyrrolidine-2-carboxamide(Non-covalent)

9NU.4: 18 residues within 4Å: Chain B: I.16, F.41, R.43, G.96, F.97, M.98, Q.100, M.103, K.118, I.122, F.149, Y.158, M.161, L.197, A.198, M.199, A.201 Ligands: NAD.3 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:I.122, B:F.149, B:Y.158, B:A.198, B:A.201 Hydrogen bonds: B:R.43, B:R.43, B:M.98 pi-Stacking: B:F.41, B:F.97 9NU.6: 10 residues within 4Å: Chain C: I.16, F.41, G.96, F.97, M.98, M.103, K.118, F.149, Y.158 Ligands: NAD.5 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:M.103, C:Y.158 Hydrogen bonds: C:M.98 pi-Stacking: C:F.41, C:F.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Soutter, H.H. et al., Discovery of Cofactor-Specific, Bactericidal Mycobacterium Tuberculosis Inha Inhibitors Using DNA-Encoded Library Technology. Proc.Natl.Acad.Sci.USA (2016)

Release Date

2016-11-30

Peptides

ENOYL-ACYL CARRIER PROTEIN REDUCTASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ENOYL-ACYL CARRIER PROTEIN REDUCTASE

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