SMTL ID : 2pd3.1

Crystal Structure of the Helicobacter pylori Enoyl-Acyl Carrier Protein Reductase in Complex with Hydroxydiphenyl Ether Compounds, Triclosan and Diclosan

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: 29 residues within 4Å: Chain A: G.13, V.14, A.15, S.19, I.20, L.40, L.44, L.63, D.64, V.65, S.91, V.92, A.93, F.94, I.118, L.143, S.144, Y.145, K.162, A.188, G.189, P.190, I.191, T.193, L.194, A.195, S.196, F.202 Ligands: TCL.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.145 Hydrogen bonds: A:G.13, A:I.20, A:D.64, A:D.64, A:V.65, A:V.92, A:A.93, A:K.162, A:I.191, A:T.193, A:A.195, A:S.196, A:S.196 Water bridges: A:L.194 NAD.3: 27 residues within 4Å: Chain B: G.13, V.14, A.15, S.19, I.20, L.40, L.44, L.63, D.64, V.65, S.91, V.92, A.93, I.118, L.143, S.144, Y.145, K.162, A.188, G.189, P.190, I.191, T.193, L.194, A.195, F.202 Ligands: TCL.4 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:Y.145, B:Y.145 Hydrogen bonds: B:G.13, B:S.19, B:I.20, B:D.64, B:D.64, B:V.65, B:V.92, B:K.162, B:I.191, B:I.191, B:T.193, B:A.195 Water bridges: B:S.91, B:S.91, B:L.143, B:L.194 NAD.5: 27 residues within 4Å: Chain C: G.13, V.14, A.15, S.19, I.20, L.40, L.44, L.63, D.64, V.65, S.91, V.92, A.93, I.118, L.143, S.144, Y.145, K.162, A.188, G.189, P.190, I.191, T.193, L.194, A.195, F.202 Ligands: TCL.6 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:Y.145 Hydrogen bonds: C:G.13, C:S.19, C:I.20, C:D.64, C:V.65, C:V.92, C:A.93, C:K.162, C:I.191, C:I.191, C:T.193, C:T.193, C:A.195 Water bridges: C:A.21, C:A.21, C:L.143, C:L.194 NAD.7: 29 residues within 4Å: Chain D: G.13, V.14, A.15, S.19, I.20, L.40, L.44, L.63, D.64, V.65, S.91, V.92, A.93, F.94, I.118, L.143, S.144, Y.145, K.162, A.188, G.189, P.190, I.191, T.193, L.194, A.195, S.196, F.202 Ligands: TCL.8 19 PLIP interactions: 19 interactions with chain D Hydrophobic interactions: D:Y.145, D:Y.145 Hydrogen bonds: D:G.13, D:S.19, D:I.20, D:D.64, D:V.65, D:V.92, D:A.93, D:K.162, D:I.191, D:I.191, D:T.193, D:T.193, D:A.195 Water bridges: D:G.13, D:S.91, D:L.194, D:L.194

4 x TCL: TRICLOSAN(Non-covalent)

TCL.2: 10 residues within 4Å: Chain A: A.93, F.94, A.95, Y.145, Y.155, A.195, S.196, I.199, F.202 Ligands: NAD.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.145, A:Y.155, A:I.199, A:F.202 Hydrogen bonds: A:Y.155 Halogen bonds: A:A.95 TCL.4: 12 residues within 4Å: Chain B: A.93, F.94, A.95, L.100, Y.145, Y.155, M.158, K.162, A.195, I.199, F.202 Ligands: NAD.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.100, B:Y.155, B:A.195, B:I.199, B:F.202 Hydrogen bonds: B:Y.155, B:Y.155 pi-Stacking: B:Y.145 Halogen bonds: B:A.95 TCL.6: 11 residues within 4Å: Chain C: A.93, F.94, A.95, L.100, Y.145, Y.155, K.162, A.195, S.196, F.202 Ligands: NAD.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.100, C:Y.155, C:A.195, C:F.202 Hydrogen bonds: C:Y.155 pi-Stacking: C:Y.145 Halogen bonds: C:A.95 TCL.8: 13 residues within 4Å: Chain D: A.93, F.94, A.95, L.100, Y.145, Y.155, M.158, K.162, A.195, S.196, I.199, F.202 Ligands: NAD.7 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:L.100, D:Y.155, D:A.195, D:I.199, D:F.202 Hydrogen bonds: D:Y.155, D:Y.155 pi-Stacking: D:Y.145 Halogen bonds: D:A.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, H.H. et al., Crystal structure of the Helicobacter pylori enoyl-acyl carrier protein reductase in complex with hydroxydiphenyl ether compounds, triclosan and diclosan. Proteins (2007)

Release Date

2007-04-17

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

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

Related Entries With Identical Sequence