SMTL ID : 3uic.2 (3 other biounits)

Crystal Structure of FabI, an Enoyl Reductase from F. tularensis, in complex with a Novel and Potent Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 23 residues within 4Å: Chain A: G.33, L.34, L.35, S.39, I.40, V.60, C.82, D.83, V.84, S.110, I.111, A.112, L.164, T.165, Y.166, K.183, A.209, G.210, I.212, T.214, L.215, A.216 Ligands: 09T.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.40, A:Y.166, A:Y.166, A:A.209 Hydrogen bonds: A:G.33, A:I.40, A:D.83, A:V.84, A:I.111, A:A.112, A:K.183, A:I.212, A:I.212, A:T.214, A:T.214, A:A.216 Water bridges: A:I.111 NAD.3: 27 residues within 4Å: Chain B: G.33, L.34, L.35, S.39, I.40, V.60, C.82, D.83, V.84, S.110, I.111, A.112, I.138, L.164, T.165, Y.166, Y.176, K.183, A.209, G.210, P.211, I.212, T.214, L.215, A.216, F.223 Ligands: 09T.4 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:I.40, B:Y.166, B:A.209 Hydrogen bonds: B:G.33, B:S.39, B:I.40, B:D.83, B:D.83, B:V.84, B:I.111, B:A.112, B:Y.176, B:K.183, B:I.212, B:I.212, B:T.214, B:A.216 Water bridges: B:G.33, B:G.33, B:S.36, B:A.41, B:A.41, B:I.111, B:L.215 NAD.5: 27 residues within 4Å: Chain C: G.33, L.34, L.35, S.39, I.40, V.60, C.82, D.83, V.84, S.110, I.111, A.112, F.113, I.138, L.164, T.165, Y.166, K.183, A.209, G.210, P.211, I.212, T.214, L.215, A.216, F.223 Ligands: 09T.6 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:I.40, C:Y.166, C:A.209 Hydrogen bonds: C:G.33, C:S.39, C:I.40, C:D.83, C:V.84, C:I.111, C:A.112, C:K.183, C:I.212, C:I.212, C:T.214, C:T.214, C:A.216 Water bridges: C:G.33, C:S.110, C:I.111 NAD.7: 27 residues within 4Å: Chain D: G.33, L.34, L.35, S.39, I.40, V.60, C.82, D.83, V.84, S.110, I.111, A.112, I.138, L.164, T.165, Y.166, Y.176, K.183, A.209, G.210, P.211, I.212, T.214, L.215, A.216, F.223 Ligands: 09T.8 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:I.40, D:Y.166, D:A.209 Hydrogen bonds: D:G.33, D:I.40, D:D.83, D:D.83, D:V.84, D:I.111, D:A.112, D:Y.176, D:K.183, D:I.212, D:I.212, D:T.214, D:A.216 Water bridges: D:A.41, D:L.215

4 x 09T: 1-(3,4-dichlorobenzyl)-5,6-dimethyl-1H-benzimidazole(Non-covalent)

09T.2: 15 residues within 4Å: Chain A: A.112, F.113, A.114, L.119, Y.166, P.174, S.175, Y.176, M.179, A.216, I.220, F.223, M.226 Chain C: M.276 Ligands: NAD.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.112, A:L.119, A:Y.166, A:I.220, A:I.220, A:F.223 pi-Stacking: A:Y.176, A:Y.176 09T.4: 14 residues within 4Å: Chain B: F.113, A.114, L.119, Y.166, P.174, S.175, Y.176, M.179, A.216, I.220, F.223, M.226 Chain D: M.276 Ligands: NAD.3 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.119, B:Y.166, B:A.216, B:I.220, B:F.223 Hydrogen bonds: B:Y.176 pi-Stacking: B:Y.176, B:Y.176 09T.6: 15 residues within 4Å: Chain A: M.276 Chain C: A.112, F.113, A.114, L.119, Y.166, P.174, S.175, Y.176, M.179, A.216, I.220, F.223, M.226 Ligands: NAD.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:A.112, C:L.119, C:Y.166, C:I.220, C:F.223 pi-Stacking: C:Y.176, C:Y.176 09T.8: 14 residues within 4Å: Chain B: M.276 Chain D: A.112, F.113, A.114, L.119, Y.166, S.175, Y.176, M.179, A.216, I.220, F.223, M.226 Ligands: NAD.7 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:A.112, D:L.119, D:Y.166, D:A.216, D:I.220 Hydrogen bonds: D:Y.176 pi-Stacking: D:Y.176, D:Y.176, D:F.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mehboob, S. et al., Structural and enzymatic analyses reveal the binding mode of a novel series of Francisella tularensis enoyl reductase (FabI) inhibitors. J.Med.Chem. (2012)

Release Date

2012-06-06

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

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

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