SMTL ID : 3rro.1

Crystal structure of 3-ketoacyl-(acyl-carrier-protein) reductase (FabG) from Vibrio cholerae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: K.106, E.107 Ligand excluded by PLIP SO4.2: 3 residues within 4Å: Chain A: R.22, G.23, K.26 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: G.85, G.86, K.135 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: S.21, R.22, A.43, T.44, S.45 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: R.136, R.179 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: K.106, E.107, E.108 Ligand excluded by PLIP SO4.12: 4 residues within 4Å: Chain A: S.5, R.35 Chain B: S.5, R.35 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain B: R.22, G.23, K.26 Ligands: EDO.19 Ligand excluded by PLIP SO4.14: 6 residues within 4Å: Chain B: G.19, A.20, S.21, T.42, A.43, T.44 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain B: I.96, R.98 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain B: R.136, R.179 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain B: G.85, G.86, K.135 Ligand excluded by PLIP SO4.24: 2 residues within 4Å: Chain C: K.106, E.107 Ligand excluded by PLIP SO4.25: 3 residues within 4Å: Chain C: R.22, G.23, K.26 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain C: G.85, G.86, K.135 Ligand excluded by PLIP SO4.27: 5 residues within 4Å: Chain C: S.21, R.22, A.43, T.44, S.45 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain C: R.136, R.179 Ligand excluded by PLIP SO4.34: 3 residues within 4Å: Chain D: K.106, E.107, E.108 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain C: S.5, R.35 Chain D: S.5, R.35 Ligand excluded by PLIP SO4.36: 4 residues within 4Å: Chain D: R.22, G.23, K.26 Ligands: EDO.42 Ligand excluded by PLIP SO4.37: 6 residues within 4Å: Chain D: G.19, A.20, S.21, T.42, A.43, T.44 Ligand excluded by PLIP SO4.38: 2 residues within 4Å: Chain D: I.96, R.98 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain D: R.136, R.179 Ligand excluded by PLIP SO4.40: 3 residues within 4Å: Chain D: G.85, G.86, K.135 Ligand excluded by PLIP

4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 4 residues within 4Å: Chain A: D.99, A.153, G.154, L.199 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.99, A:D.99 PGE.22: 4 residues within 4Å: Chain B: D.99, N.100, A.153, G.154 No protein-ligand interaction detected (PLIP) PGE.29: 4 residues within 4Å: Chain C: D.99, A.153, G.154, L.199 2 PLIP interactions: 2 interactions with chain C Water bridges: C:D.99, C:D.99 PGE.45: 4 residues within 4Å: Chain D: D.99, N.100, A.153, G.154 No protein-ligand interaction detected (PLIP)

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

EDO.7: 7 residues within 4Å: Chain A: I.251 Chain B: K.170, I.251 Chain C: I.251 Ligands: EDO.21, EDO.30, EDO.44 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: A:I.251, B:K.170, C:I.251 EDO.8: 8 residues within 4Å: Chain A: G.19, R.22, G.23, I.24, G.25, N.93, T.193 Ligands: EDO.9 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.19, A:I.24, A:G.25, A:N.93 Water bridges: A:R.22 EDO.9: 5 residues within 4Å: Chain A: R.22, G.23, T.193, D.194 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.194, A:D.194 EDO.18: 5 residues within 4Å: Chain A: T.149 Chain B: I.251 Chain C: K.170 Chain D: I.251 Ligands: EDO.41 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:K.170 Water bridges: A:G.148, A:T.149 EDO.19: 6 residues within 4Å: Chain B: R.22, G.23, T.193, D.194 Ligands: SO4.13, EDO.20 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.194 EDO.20: 8 residues within 4Å: Chain B: G.19, R.22, G.23, I.24, G.25, N.93, T.193 Ligands: EDO.19 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.19, B:I.24, B:G.25, B:N.93 EDO.21: 8 residues within 4Å: Chain B: G.148, T.149, A.163 Chain D: I.166, K.170 Ligands: EDO.7, EDO.30, EDO.44 No protein-ligand interaction detected (PLIP) EDO.30: 7 residues within 4Å: Chain A: I.251 Chain C: I.251 Chain D: K.170, I.251 Ligands: EDO.7, EDO.21, EDO.44 3 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: D:K.170, A:I.251, C:I.251 EDO.31: 8 residues within 4Å: Chain C: G.19, R.22, G.23, I.24, G.25, N.93, T.193 Ligands: EDO.32 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.19, C:I.24, C:G.25, C:N.93 Water bridges: C:R.22 EDO.32: 5 residues within 4Å: Chain C: R.22, G.23, T.193, D.194 Ligands: EDO.31 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.194, C:D.194 EDO.41: 5 residues within 4Å: Chain A: K.170 Chain B: I.251 Chain C: T.149 Chain D: I.251 Ligands: EDO.18 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Water bridges: C:G.148, A:K.170 Hydrogen bonds: A:K.170 EDO.42: 6 residues within 4Å: Chain D: R.22, G.23, T.193, D.194 Ligands: SO4.36, EDO.43 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.194 EDO.43: 8 residues within 4Å: Chain D: G.19, R.22, G.23, I.24, G.25, N.93, T.193 Ligands: EDO.42 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:G.19, D:I.24, D:G.25, D:N.93 EDO.44: 8 residues within 4Å: Chain B: I.166, K.170 Chain D: G.148, T.149, A.163 Ligands: EDO.7, EDO.21, EDO.30 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 2 residues within 4Å: Chain A: S.178, R.179 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.178 GOL.33: 2 residues within 4Å: Chain C: S.178, R.179 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.178

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.23: 3 residues within 4Å: Chain B: G.95, Y.158, K.162 Ligand excluded by PLIP CL.46: 3 residues within 4Å: Chain D: G.95, Y.158, K.162 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

2011-05-18

Peptides

3-ketoacyl-(acyl-carrier-protein) reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

3-ketoacyl-(acyl-carrier-protein) reductase

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