SMTL ID : 4i08.1

Crystal structure of beta-ketoacyl-acyl carrier protein reductase (FabG) from Vibrio cholerae in complex with NADPH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: S.5, R.35 Chain B: S.5, F.7, R.35 Ligand excluded by PLIP SO4.2: 2 residues within 4Å: Chain A: R.136, R.179 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: D.99, N.100, L.101, G.154 Ligand excluded by PLIP SO4.4: 1 residues within 4Å: Chain A: R.104 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain B: R.136, R.179 Ligand excluded by PLIP SO4.8: 2 residues within 4Å: Chain B: I.96, R.98 Ligand excluded by PLIP SO4.9: 2 residues within 4Å: Chain B: G.86, K.135 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain B: R.22, G.23, K.26 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain B: R.174, E.175, R.179 Chain D: A.153 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: K.106, E.107, E.108 Ligand excluded by PLIP SO4.15: 5 residues within 4Å: Chain C: S.5, R.35 Chain D: S.5, F.7, R.35 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: R.136, R.179 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain C: D.99, N.100, L.101, G.154 Ligand excluded by PLIP SO4.18: 1 residues within 4Å: Chain C: R.104 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain D: R.136, R.179 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain D: I.96, R.98 Ligand excluded by PLIP SO4.23: 2 residues within 4Å: Chain D: G.86, K.135 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain D: R.22, G.23, K.26 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain B: A.153 Chain D: R.174, E.175, R.179 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain D: K.106, E.107, E.108 Ligand excluded by PLIP

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 4 residues within 4Å: Chain A: G.95, I.96, T.97 Ligands: NDP.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.95, A:T.97, A:T.97 Water bridges: A:R.22 EDO.13: 7 residues within 4Å: Chain B: G.86, V.87, D.88, V.128, G.131, M.132, K.135 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.87, B:D.88, B:M.132 EDO.19: 4 residues within 4Å: Chain C: G.95, I.96, T.97 Ligands: NDP.20 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.95, C:T.97, C:T.97 Water bridges: C:R.22 EDO.27: 7 residues within 4Å: Chain D: G.86, V.87, D.88, V.128, G.131, M.132, K.135 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:V.87, D:D.88, D:M.132

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

NDP.6: 27 residues within 4Å: Chain A: G.19, A.20, S.21, R.22, G.23, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, T.116, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193 Ligands: EDO.5 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:P.188 Hydrogen bonds: A:G.19, A:S.21, A:S.21, A:S.21, A:I.24, A:T.44, A:T.44, A:N.66, A:V.67, A:N.93, A:G.95, A:Y.158, A:K.162, A:I.191, A:T.193, A:T.193 Water bridges: A:G.19, A:R.22, A:S.45 Salt bridges: A:R.22, A:R.22 NDP.14: 27 residues within 4Å: Chain B: G.19, A.20, S.21, R.22, G.23, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, T.116, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193, T.196 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:P.188 Hydrogen bonds: B:G.19, B:S.21, B:S.21, B:S.21, B:I.24, B:T.44, B:T.44, B:S.45, B:N.66, B:V.67, B:N.93, B:G.95, B:K.162, B:I.191, B:T.193, B:T.193, B:T.193, B:T.196 Salt bridges: B:R.22, B:R.22 NDP.20: 27 residues within 4Å: Chain C: G.19, A.20, S.21, R.22, G.23, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, T.116, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193 Ligands: EDO.19 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:P.188 Hydrogen bonds: C:G.19, C:S.21, C:S.21, C:S.21, C:I.24, C:T.44, C:T.44, C:N.66, C:V.67, C:N.93, C:G.95, C:Y.158, C:K.162, C:I.191, C:T.193, C:T.193 Water bridges: C:G.19, C:R.22, C:S.45 Salt bridges: C:R.22, C:R.22 NDP.28: 27 residues within 4Å: Chain D: G.19, A.20, S.21, R.22, G.23, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, T.116, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193, T.196 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:P.188 Hydrogen bonds: D:G.19, D:S.21, D:S.21, D:S.21, D:I.24, D:T.44, D:T.44, D:S.45, D:N.66, D:V.67, D:N.93, D:G.95, D:K.162, D:I.191, D:T.193, D:T.193, D:T.193, D:T.196 Salt bridges: D:R.22, D:R.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hou, J. et al., Dissecting the Structural Elements for the Activation of beta-Ketoacyl-(Acyl Carrier Protein) Reductase from Vibrio cholerae. J.Bacteriol. (2015)

Release Date

2012-12-12

Peptides

3-oxoacyl-[acyl-carrier-protein] reductase FabG: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-oxoacyl-[acyl-carrier-protein] reductase FabG

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