SMTL ID : 3ojf.1

Crystal Structure of the Bacillus cereus Enoyl-Acyl Carrier Protein Reductase with NADP+ and indole naphthyridinone (Complex form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x IMJ: (2E)-N-[(1,2-dimethyl-1H-indol-3-yl)methyl]-N-methyl-3-(7-oxo-5,6,7,8-tetrahydro-1,8-naphthyridin-3-yl)prop-2-enamide(Non-covalent)

IMJ.1: 14 residues within 4Å: Chain A: F.96, A.97, Y.147, V.154, K.155, N.156, Y.157, M.160, P.192, S.197, V.201, F.204, I.207 Ligands: NDP.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.147, A:P.192, A:V.201, A:F.204 Hydrogen bonds: A:A.97, A:A.97 pi-Stacking: A:Y.157, A:Y.157 IMJ.3: 15 residues within 4Å: Chain B: F.96, A.97, R.99, L.102, Y.147, V.154, N.156, Y.157, M.160, P.192, S.197, V.201, F.204, I.207 Ligands: NDP.4 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.147, B:P.192, B:V.201, B:V.201, B:F.204 Hydrogen bonds: B:A.97, B:A.97, B:Y.157 Water bridges: B:R.99 pi-Stacking: B:Y.157, B:Y.157 IMJ.5: 14 residues within 4Å: Chain C: F.96, A.97, R.99, L.102, Y.147, V.154, K.155, N.156, Y.157, M.160, P.192, S.197, V.201 Ligands: NDP.6 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:L.102, C:Y.147, C:P.192, C:V.201 Hydrogen bonds: C:A.97, C:A.97 Water bridges: C:R.99, C:R.99 pi-Stacking: C:Y.157, C:Y.157 IMJ.7: 11 residues within 4Å: Chain D: F.96, A.97, Y.147, V.154, N.156, Y.157, M.160, P.192, S.197, F.204 Ligands: NDP.8 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:P.192, D:F.204 Hydrogen bonds: D:A.97, D:A.97, D:Y.157 Water bridges: D:R.99 pi-Stacking: D:Y.157, D:Y.157

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 27 residues within 4Å: Chain A: G.13, V.14, A.15, S.19, I.20, A.40, L.44, C.65, D.66, V.67, C.93, I.94, A.95, F.96, I.120, L.145, T.146, Y.147, K.164, A.190, G.191, P.192, I.193, T.195, L.196, S.197 Ligands: IMJ.1 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:I.20, A:Y.147, A:Y.147, A:A.190 Hydrogen bonds: A:G.13, A:I.20, A:D.66, A:V.67, A:I.94, A:I.94, A:A.95, A:K.164, A:I.193, A:I.193, A:T.195, A:T.195, A:S.197 Water bridges: A:A.21, A:A.40, A:A.40, A:S.197 NDP.4: 28 residues within 4Å: Chain B: G.13, V.14, A.15, S.19, I.20, A.40, R.43, L.44, C.65, D.66, V.67, C.93, I.94, A.95, F.96, I.120, L.145, T.146, Y.147, K.164, A.190, G.191, P.192, I.193, T.195, L.196, S.197 Ligands: IMJ.3 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:I.20, B:Y.147, B:Y.147, B:A.190 Hydrogen bonds: B:G.13, B:I.20, B:D.66, B:D.66, B:V.67, B:I.94, B:A.95, B:Y.157, B:K.164, B:I.193, B:I.193, B:T.195, B:T.195, B:S.197 Water bridges: B:A.21, B:A.40, B:I.94 Salt bridges: B:R.43 NDP.6: 27 residues within 4Å: Chain C: G.13, V.14, A.15, S.19, I.20, A.40, L.44, C.65, D.66, V.67, C.93, I.94, A.95, F.96, I.120, L.145, T.146, Y.147, K.164, A.190, G.191, P.192, I.193, T.195, L.196, S.197 Ligands: IMJ.5 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.20, C:Y.147, C:Y.147, C:A.190 Hydrogen bonds: C:G.13, C:I.20, C:D.66, C:V.67, C:I.94, C:A.95, C:K.164, C:I.193, C:I.193, C:T.195, C:S.197 Water bridges: C:A.21, C:I.94, C:L.196 NDP.8: 27 residues within 4Å: Chain D: G.13, V.14, A.15, S.19, I.20, A.40, L.44, C.65, D.66, V.67, T.68, C.93, I.94, A.95, I.120, L.145, T.146, Y.147, K.164, A.190, G.191, P.192, I.193, T.195, L.196, S.197 Ligands: IMJ.7 19 PLIP interactions: 19 interactions with chain D Hydrophobic interactions: D:I.20, D:Y.147, D:Y.147, D:A.190 Hydrogen bonds: D:G.13, D:I.20, D:D.66, D:V.67, D:I.94, D:A.95, D:Y.157, D:K.164, D:I.193, D:I.193, D:T.195, D:T.195, D:S.197 Water bridges: D:A.21, D:I.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, S.J. et al., Dimeric and tetrameric forms of enoyl-acyl carrier protein reductase from Bacillus cereus. Biochem.Biophys.Res.Commun. (2010)

Release Date

2010-09-08

Peptides

Enoyl-[acyl-carrier-protein] reductase (FabL) (NADPH): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
B

D
C

Enoyl-[acyl-carrier-protein] reductase (FabL) (NADPH)