SMTL ID : 1mfp.1

E. coli Enoyl Reductase in complex with NAD and SB611113

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 26 residues within 4Å: Chain A: G.13, V.14, A.15, S.19, I.20, Q.40, L.44, C.63, D.64, V.65, S.91, I.92, G.93, I.119, L.144, S.145, Y.146, K.163, A.189, G.190, P.191, I.192, T.194, L.195, A.196 Ligands: IDN.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.20, A:Y.146, A:A.189 Hydrogen bonds: A:G.13, A:S.19, A:I.20, A:D.64, A:V.65, A:I.92, A:G.93, A:K.163, A:I.192, A:I.192, A:A.196 Water bridges: A:A.21, A:Q.40, A:I.92 NAD.4: 26 residues within 4Å: Chain B: G.13, V.14, A.15, S.19, I.20, Q.40, L.44, C.63, D.64, V.65, S.91, I.92, G.93, I.119, L.144, S.145, Y.146, K.163, A.189, G.190, P.191, I.192, T.194, L.195, A.196 Ligands: IDN.5 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:I.20, B:Y.146, B:A.189 Hydrogen bonds: B:G.13, B:S.19, B:I.20, B:Q.40, B:D.64, B:V.65, B:I.92, B:G.93, B:K.163, B:I.192, B:I.192, B:T.194, B:A.196 Water bridges: B:A.21, B:S.91, B:I.92 NAD.6: 26 residues within 4Å: Chain C: G.13, V.14, A.15, S.19, I.20, Q.40, L.44, C.63, D.64, V.65, S.91, I.92, G.93, I.119, L.144, S.145, Y.146, K.163, A.189, G.190, P.191, I.192, T.194, L.195, A.196 Ligands: IDN.7 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:I.20, C:Y.146, C:A.189 Hydrogen bonds: C:G.13, C:S.19, C:I.20, C:D.64, C:D.64, C:V.65, C:I.92, C:G.93, C:K.163, C:I.192, C:I.192, C:T.194, C:A.196 Water bridges: C:A.21, C:Q.40, C:I.92 NAD.9: 26 residues within 4Å: Chain D: G.13, V.14, A.15, S.19, I.20, Q.40, L.44, C.63, D.64, V.65, S.91, I.92, G.93, I.119, L.144, S.145, Y.146, K.163, A.189, G.190, P.191, I.192, T.194, L.195, A.196 Ligands: IDN.10 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:I.20, D:Y.146, D:A.189 Hydrogen bonds: D:G.13, D:S.19, D:I.20, D:Q.40, D:D.64, D:V.65, D:I.92, D:G.93, D:K.163, D:I.192, D:I.192, D:A.196 Water bridges: D:A.21, D:S.91, D:I.92

4 x IDN: (E)-N-METHYL-N-(1-METHYL-1H-INDOL-3-YLMETHYL)-3-(7-OXO-5,6,7,8-TETRAHYDRO-[1,8]NAPHTHYRIDIN-3-YL)-ACRYLAMIDE(Non-covalent)

IDN.2: 13 residues within 4Å: Chain A: G.93, F.94, A.95, L.100, Y.146, N.155, Y.156, M.159, A.196, I.200, K.201, M.206 Ligands: NAD.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.156 Hydrogen bonds: A:A.95, A:A.95, A:Y.156 pi-Stacking: A:Y.156 IDN.5: 14 residues within 4Å: Chain B: F.94, A.95, G.97, L.100, Y.146, Y.156, M.159, P.191, A.196, I.200, K.201, F.203, M.206 Ligands: NAD.4 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.100, B:Y.146, B:P.191, B:I.200, B:F.203 Hydrogen bonds: B:A.95, B:A.95, B:G.97 pi-Stacking: B:Y.156 IDN.7: 13 residues within 4Å: Chain C: G.93, F.94, A.95, L.100, Y.146, N.155, Y.156, M.159, A.196, I.200, K.201, M.206 Ligands: NAD.6 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Y.156 Hydrogen bonds: C:A.95, C:A.95 pi-Stacking: C:Y.156 IDN.10: 14 residues within 4Å: Chain D: F.94, A.95, G.97, L.100, Y.146, Y.156, M.159, P.191, A.196, I.200, K.201, F.203, M.206 Ligands: NAD.9 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:L.100, D:Y.146, D:P.191, D:I.200, D:F.203 Hydrogen bonds: D:A.95, D:A.95, D:G.97, D:Y.156 pi-Stacking: D:Y.156

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain B: D.101, G.102, D.103 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.103 SO4.8: 3 residues within 4Å: Chain D: D.101, G.102, D.103 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seefeld, M.A. et al., Indole Naphthyridinones as Inhibitors of Bacterial Enoyl-ACP Reductases FabI and FabK. J.MED.CHEM. (2003)

Release Date

2003-05-06

Peptides

enoyl-[acyl-carrier-protein] reductase [Nadh]: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

enoyl-[acyl-carrier-protein] reductase [Nadh]

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