SMTL ID : 4j4t.3 (5 other biounits)

Crystal Structure of FabI from F. tularensis in complex with novel inhibitors based on the benzimidazole scaffold

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 26 residues within 4Å: Chain A: G.33, 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: 1JU.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:I.40, A:Y.166, A:A.209 Hydrogen bonds: A:G.33, A:I.40, A:D.83, A:D.83, A:V.84, A:I.111, A:A.112, A:Y.176, A:K.183, A:I.212, A:I.212, A:T.214, A:A.216 Water bridges: A:A.41, A:I.111, A:L.215 NAD.3: 26 residues within 4Å: Chain B: G.33, 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: 1JU.4 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:Y.166, B:Y.166, B:A.209 Hydrogen bonds: B:G.33, B:I.40, B:D.83, B:V.84, B:I.111, B:A.112, B:K.183, B:I.212, B:I.212, B:T.214, B:T.214, B:A.216 Water bridges: B:G.33, B:A.41, B:S.110, B:I.111, B:L.215, B:L.215

2 x 1JU: 1-(1,3-benzodioxol-5-ylmethyl)-5,6,7,8-tetrahydro-1H-naphtho[2,3-d]imidazole(Non-covalent)

1JU.2: 13 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, F.223, M.226 Ligands: NAD.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.119, A:Y.166, A:A.216, A:F.223 Hydrogen bonds: A:Y.176 pi-Stacking: A:Y.176, A:Y.176, A:Y.176 1JU.4: 13 residues within 4Å: Chain B: A.112, F.113, A.114, L.119, Y.166, P.174, S.175, Y.176, M.179, A.216, F.223, M.226 Ligands: NAD.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.119, B:Y.166, B:A.216, B:F.223 pi-Stacking: B:Y.176, B:Y.176, B:Y.176

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 2 residues within 4Å: Chain B: S.86, Q.88 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.86, B:D.87, B:Q.88

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mehboob, S. et al., Structural and biological evaluation of a novel series of benzimidazole inhibitors of Francisella tularensis enoyl-ACP reductase (FabI). Bioorg.Med.Chem.Lett. (2015)

Release Date

2014-07-23

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

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

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