SMTL ID : 5cg1.1

Crystal structure of E. coli FabI bound to the carbamoylated benzodiazaborine inhibitor 14b.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 23 residues within 4Å: Chain A: G.56, V.57, A.58, S.62, I.63, Q.83, L.87, C.106, D.107, V.108, S.134, I.135, G.136, I.162, L.187, S.188, Y.189, K.206, A.232, G.233, P.234, I.235 Ligands: BBN.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:I.63, A:Y.189, A:A.232 Hydrogen bonds: A:G.56, A:I.63, A:D.107, A:V.108, A:A.109, A:I.135, A:G.136, A:K.206, A:I.235 Water bridges: A:G.56, A:L.61, A:A.64, A:Q.83, A:Q.83, A:Q.83, A:I.135 NAD.3: 23 residues within 4Å: Chain B: G.56, A.58, S.62, I.63, Q.83, C.106, D.107, V.108, S.134, I.135, G.136, I.162, L.187, S.188, Y.189, K.206, A.232, G.233, P.234, I.235, T.237, F.246 Ligands: BBN.4 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:I.63, B:Y.189, B:A.232 Hydrogen bonds: B:G.56, B:S.62, B:I.63, B:D.107, B:V.108, B:I.135, B:G.136, B:K.206, B:I.235, B:I.235 Water bridges: B:Q.83, B:Q.83, B:S.134, B:S.134, B:I.135 NAD.5: 23 residues within 4Å: Chain C: G.56, V.57, A.58, S.62, I.63, Q.83, L.87, C.106, D.107, V.108, S.134, I.135, G.136, I.162, L.187, S.188, Y.189, K.206, A.232, G.233, P.234, I.235 Ligands: BBN.6 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:I.63, C:Y.189, C:A.232 Hydrogen bonds: C:G.56, C:I.63, C:D.107, C:D.107, C:V.108, C:A.109, C:I.135, C:G.136, C:K.206, C:I.235 Water bridges: C:G.56, C:L.61, C:A.64, C:Q.83, C:Q.83, C:Q.83, C:I.135 NAD.7: 23 residues within 4Å: Chain D: G.56, A.58, S.62, I.63, Q.83, C.106, D.107, V.108, S.134, I.135, G.136, I.162, L.187, S.188, Y.189, K.206, A.232, G.233, P.234, I.235, T.237, F.246 Ligands: BBN.8 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:I.63, D:Y.189, D:A.232 Hydrogen bonds: D:G.56, D:S.62, D:I.63, D:D.107, D:D.107, D:V.108, D:I.135, D:G.136, D:K.206, D:I.235, D:I.235, D:T.237 Water bridges: D:Q.83, D:Q.83, D:S.134, D:S.134, D:I.135

4 x BBN: 1-hydroxy-2,3,1-benzodiazaborinine-2(1H)-carboxamide(Non-covalent)

BBN.2: 7 residues within 4Å: Chain A: G.136, F.137, Y.189, Y.199, M.202, K.206 Ligands: NAD.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.189, A:Y.199 Hydrogen bonds: A:G.136, A:K.206 pi-Stacking: A:Y.189 BBN.4: 8 residues within 4Å: Chain B: G.136, F.137, Y.189, Y.199, M.202, K.206, F.246 Ligands: NAD.3 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.189, B:Y.199, B:F.246 Hydrogen bonds: B:G.136, B:G.136, B:Y.199, B:K.206 pi-Stacking: B:Y.189 BBN.6: 7 residues within 4Å: Chain C: G.136, F.137, Y.189, Y.199, M.202, K.206 Ligands: NAD.5 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:Y.189, C:Y.199 Hydrogen bonds: C:G.136, C:Y.199, C:K.206 pi-Stacking: C:Y.189 BBN.8: 8 residues within 4Å: Chain D: G.136, F.137, Y.189, Y.199, M.202, K.206, F.246 Ligands: NAD.7 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:Y.189, D:Y.199, D:F.246 Hydrogen bonds: D:G.136, D:G.136, D:K.206 pi-Stacking: D:Y.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jordan, C.A. et al., Crystallographic insights into the structure-activity relationships of diazaborine enoyl-ACP reductase inhibitors. Acta Crystallogr.,Sect.F (2015)

Release Date

2015-12-09

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

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

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