SMTL ID : 3rsh.1

Structure of 3-ketoacyl-(acyl-carrier-protein)reductase (FabG) from Vibrio cholerae O1 complexed with NADP+ (space group P62)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: R.136, R.179 Ligand excluded by PLIP SO4.2: 3 residues within 4Å: Chain A: R.22, G.23, K.26 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: K.106, E.107, E.108 Chain C: K.126 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: I.96, R.98 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: G.86, K.135 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: R.22, G.23, K.26 Ligand excluded by PLIP SO4.12: 2 residues within 4Å: Chain B: K.106, E.107 Ligand excluded by PLIP SO4.13: 7 residues within 4Å: Chain A: S.5, F.7, R.35 Chain B: M.4, S.5, F.7, R.35 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain B: I.96, R.98 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain B: R.136, R.179 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain B: G.86, K.135 Ligand excluded by PLIP SO4.24: 2 residues within 4Å: Chain C: R.136, R.179 Ligand excluded by PLIP SO4.25: 3 residues within 4Å: Chain C: R.22, G.23, K.26 Ligand excluded by PLIP SO4.26: 4 residues within 4Å: Chain A: K.126 Chain C: K.106, E.107, E.108 Ligand excluded by PLIP SO4.27: 2 residues within 4Å: Chain C: I.96, R.98 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain C: G.86, K.135 Ligand excluded by PLIP SO4.34: 3 residues within 4Å: Chain D: R.22, G.23, K.26 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain D: K.106, E.107 Ligand excluded by PLIP SO4.36: 7 residues within 4Å: Chain C: S.5, F.7, R.35 Chain D: M.4, S.5, F.7, R.35 Ligand excluded by PLIP SO4.37: 2 residues within 4Å: Chain D: I.96, R.98 Ligand excluded by PLIP SO4.38: 2 residues within 4Å: Chain D: R.136, R.179 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain D: G.86, K.135 Ligand excluded by PLIP

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.6: 29 residues within 4Å: Chain A: G.19, A.20, S.21, R.22, 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, D.194, M.195, T.196 Ligands: UNX.10 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:I.24, 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:I.191, A:T.193, A:T.193 Water bridges: A:G.19, A:R.22, A:N.93, A:N.93 Salt bridges: A:R.22, A:R.22 NAP.17: 26 residues within 4Å: Chain B: G.19, A.20, S.21, R.22, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193, T.196 Ligands: UNX.20 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:P.188 Hydrogen bonds: B:G.19, B:S.21, B:S.21, B:I.24, B:T.44, B:T.44, B:N.66, B:V.67, B:N.93, B:G.95, B:K.162, B:I.191, B:T.193, B:T.193 Water bridges: B:G.19, B:R.22, B:R.22 Salt bridges: B:R.22, B:R.22 NAP.29: 29 residues within 4Å: Chain C: G.19, A.20, S.21, R.22, 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, D.194, M.195, T.196 Ligands: UNX.33 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:I.24, 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:I.191, C:T.193, C:T.193 Water bridges: C:G.19, C:R.22, C:N.93, C:N.93 Salt bridges: C:R.22, C:R.22 NAP.40: 26 residues within 4Å: Chain D: G.19, A.20, S.21, R.22, I.24, A.43, T.44, L.65, N.66, V.67, N.93, A.94, G.95, I.96, V.143, G.144, S.145, Y.158, K.162, P.188, G.189, F.190, I.191, T.193, T.196 Ligands: UNX.43 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:P.188 Hydrogen bonds: D:G.19, D:S.21, D:S.21, D:I.24, D:T.44, D:T.44, D:N.66, D:V.67, D:N.93, D:G.95, D:K.162, D:I.191, D:T.193, D:T.193 Water bridges: D:G.19, D:R.22, D:R.22 Salt bridges: D:R.22, D:R.22

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

EDO.7: 6 residues within 4Å: Chain A: I.251 Chain B: T.149, K.170 Chain C: I.251 Chain D: K.170 Ligands: EDO.30 6 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B, 2 interactions with chain D Hydrogen bonds: A:I.251, C:I.251, B:K.170, B:K.170, D:K.170, D:K.170 EDO.23: 7 residues within 4Å: Chain A: T.149, K.170 Chain B: I.251 Chain C: T.149, K.170 Chain D: I.251 Ligands: EDO.46 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:K.170, C:K.170 EDO.30: 6 residues within 4Å: Chain A: I.251 Chain B: K.170 Chain C: I.251 Chain D: T.149, K.170 Ligands: EDO.7 6 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B, 2 interactions with chain D Hydrogen bonds: A:I.251, C:I.251, B:K.170, B:K.170, D:K.170, D:K.170 EDO.46: 7 residues within 4Å: Chain A: T.149, K.170 Chain B: I.251 Chain C: T.149, K.170 Chain D: I.251 Ligands: EDO.23 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:K.170, C:K.170

16 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.8: 3 residues within 4Å: Chain A: D.99, N.152 Ligands: UNX.9 Ligand excluded by PLIP UNX.9: 3 residues within 4Å: Chain A: D.99, G.154 Ligands: UNX.8 Ligand excluded by PLIP UNX.10: 2 residues within 4Å: Chain A: Y.158 Ligands: NAP.6 Ligand excluded by PLIP UNX.18: 1 residues within 4Å: Ligands: UNX.19 Ligand excluded by PLIP UNX.19: 3 residues within 4Å: Chain B: A.153 Ligands: UNX.18, UNX.22 Ligand excluded by PLIP UNX.20: 4 residues within 4Å: Chain B: S.145, Y.158 Ligands: NAP.17, UNX.21 Ligand excluded by PLIP UNX.21: 3 residues within 4Å: Chain B: T.97, Q.155 Ligands: UNX.20 Ligand excluded by PLIP UNX.22: 3 residues within 4Å: Chain B: N.152, Q.155 Ligands: UNX.19 Ligand excluded by PLIP UNX.31: 3 residues within 4Å: Chain C: D.99, N.152 Ligands: UNX.32 Ligand excluded by PLIP UNX.32: 3 residues within 4Å: Chain C: D.99, G.154 Ligands: UNX.31 Ligand excluded by PLIP UNX.33: 2 residues within 4Å: Chain C: Y.158 Ligands: NAP.29 Ligand excluded by PLIP UNX.41: 1 residues within 4Å: Ligands: UNX.42 Ligand excluded by PLIP UNX.42: 3 residues within 4Å: Chain D: A.153 Ligands: UNX.41, UNX.45 Ligand excluded by PLIP UNX.43: 4 residues within 4Å: Chain D: S.145, Y.158 Ligands: NAP.40, UNX.44 Ligand excluded by PLIP UNX.44: 3 residues within 4Å: Chain D: T.97, Q.155 Ligands: UNX.43 Ligand excluded by PLIP UNX.45: 3 residues within 4Å: Chain D: N.152, Q.155 Ligands: UNX.42 Ligand excluded by PLIP

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

2011-05-11

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-oxoacyl-[acyl-carrier protein] reductase

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