SMTL ID : 8jfn.1

Crystal structure of enoyl-ACP reductase FabI in complex with NAD+ and crotonyl-ACP from Helicobacter pylori

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

hetero-4-4-mer

Ligands

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

NAD.1: 27 residues within 4Å: Chain A: G.13, V.14, A.15, S.19, I.20, L.40, 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, S.196, F.202 Ligands: PSR.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:I.20, A:Y.145, A:A.188 Hydrogen bonds: A:G.13, A:S.19, A:I.20, A:D.64, A:D.64, A:V.65, A:V.92, A:V.92, A:A.93, A:K.162, A:I.191, A:I.191, A:A.195 Water bridges: A:S.91, A:S.91, A:L.143, A:L.194 NAD.3: 27 residues within 4Å: Chain C: G.13, V.14, A.15, S.19, I.20, L.40, 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, S.196, F.202 Ligands: PSR.4 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:I.20, C:Y.145, C:A.188 Hydrogen bonds: C:G.13, C:S.19, C:I.20, C:D.64, C:D.64, C:V.65, C:V.92, C:V.92, C:A.93, C:K.162, C:I.191, C:I.191, C:A.195 Water bridges: C:S.91, C:S.91, C:L.143, C:L.194 NAD.5: 27 residues within 4Å: Chain E: G.13, V.14, A.15, S.19, I.20, L.40, 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, S.196, F.202 Ligands: PSR.6 20 PLIP interactions: 20 interactions with chain E Hydrophobic interactions: E:I.20, E:Y.145, E:A.188 Hydrogen bonds: E:G.13, E:S.19, E:I.20, E:D.64, E:V.65, E:V.92, E:V.92, E:A.93, E:K.162, E:I.191, E:I.191, E:T.193, E:A.195 Water bridges: E:S.91, E:S.91, E:L.143, E:L.194 NAD.7: 27 residues within 4Å: Chain G: G.13, V.14, A.15, S.19, I.20, L.40, 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, S.196, F.202 Ligands: PSR.8 20 PLIP interactions: 20 interactions with chain G Hydrophobic interactions: G:I.20, G:Y.145, G:A.188 Hydrogen bonds: G:G.13, G:S.19, G:I.20, G:D.64, G:V.65, G:V.92, G:V.92, G:A.93, G:K.162, G:I.191, G:I.191, G:T.193, G:A.195 Water bridges: G:S.91, G:S.91, G:L.143, G:L.194

4 x PSR: THIOBUTYRIC ACID S-{2-[3-(2-HYDROXY-3,3-DIMETHYL-4-PHOSPHONOOXY-BUTYRYLAMINO)-PROPIONYLAMINO]-ETHYL} ESTER(Covalent)

PSR.2: 16 residues within 4Å: Chain A: F.94, A.95, K.97, L.100, Y.145, Y.155, M.158, K.162, L.194, A.195, G.198, I.199, F.202 Chain B: S.38, L.39 Ligands: NAD.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.100, A:Y.145, A:Y.145, A:Y.155, A:I.199, A:F.202 Hydrogen bonds: A:A.95, A:A.95, A:Y.155, A:A.195 Water bridges: A:K.97, A:K.97 Salt bridges: A:K.97 PSR.4: 16 residues within 4Å: Chain C: F.94, A.95, K.97, L.100, Y.145, Y.155, M.158, K.162, L.194, A.195, G.198, I.199, F.202 Chain D: S.38, L.39 Ligands: NAD.3 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:L.100, C:Y.145, C:Y.145, C:Y.155, C:I.199, C:F.202 Hydrogen bonds: C:A.95, C:A.95, C:Y.155, C:A.195 Water bridges: C:K.97, C:K.97 Salt bridges: C:K.97 PSR.6: 16 residues within 4Å: Chain E: F.94, A.95, K.97, L.100, Y.145, Y.155, M.158, K.162, L.194, A.195, G.198, I.199, F.202 Chain F: S.38, L.39 Ligands: NAD.5 12 PLIP interactions: 12 interactions with chain E Hydrophobic interactions: E:L.100, E:Y.145, E:Y.145, E:Y.155, E:I.199, E:F.202 Hydrogen bonds: E:A.95, E:A.95, E:A.195 Water bridges: E:K.97, E:K.97 Salt bridges: E:K.97 PSR.8: 16 residues within 4Å: Chain G: F.94, A.95, K.97, L.100, Y.145, Y.155, M.158, K.162, L.194, A.195, G.198, I.199, F.202 Chain H: S.38, L.39 Ligands: NAD.7 12 PLIP interactions: 12 interactions with chain G Hydrophobic interactions: G:L.100, G:Y.145, G:Y.145, G:Y.155, G:I.199, G:F.202 Hydrogen bonds: G:A.95, G:A.95, G:A.195 Water bridges: G:K.97, G:K.97 Salt bridges: G:K.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, J. et al., The Molecular Basis of Catalysis by SDR Family Members Ketoacyl-ACP Reductase FabG and Enoyl-ACP Reductase FabI in Type-II Fatty Acid Biosynthesis. Angew.Chem.Int.Ed.Engl. (2023)

Release Date

2023-11-15

Peptides

Enoyl-[acyl-carrier-protein] reductase [NADH]: ACEG
Acyl carrier protein: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

B
B

D
B

F
B

H
B

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

Acyl carrier protein

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