SMTL ID : 3op4.1

Crystal structure of putative 3-ketoacyl-(acyl-carrier-protein) reductase from Vibrio cholerae O1 biovar eltor str. N16961 in complex with NADP+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

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

NAP.1: 28 residues within 4Å: Chain A: G.16, A.17, S.18, R.19, G.20, I.21, A.40, T.41, L.62, N.63, V.64, N.90, A.91, G.92, I.93, T.113, V.140, G.141, S.142, Y.155, K.159, P.185, G.186, F.187, I.188, T.190, M.192 Ligands: ACT.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:P.185 Hydrogen bonds: A:G.16, A:S.18, A:S.18, A:S.18, A:I.21, A:T.41, A:S.42, A:N.63, A:V.64, A:N.90, A:G.92, A:K.159, A:I.188, A:I.188, A:T.190, A:T.190, A:D.191 Water bridges: A:G.16, A:R.19, A:R.19, A:R.19, A:R.19, A:R.19, A:G.22, A:N.63, A:T.65, A:N.90 Salt bridges: A:R.19, A:R.19 NAP.3: 29 residues within 4Å: Chain B: G.16, A.17, S.18, R.19, G.20, I.21, A.40, T.41, L.62, N.63, V.64, T.65, N.90, A.91, G.92, I.93, T.113, V.140, G.141, S.142, Y.155, K.159, P.185, G.186, F.187, I.188, T.190, M.192 Ligands: ACT.4 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:I.21, B:P.185 Hydrogen bonds: B:G.16, B:S.18, B:S.18, B:I.21, B:T.41, B:T.41, B:N.63, B:V.64, B:N.90, B:G.92, B:Y.155, B:K.159, B:I.188, B:I.188, B:T.190 Water bridges: B:G.16, B:R.19, B:R.19, B:R.19, B:R.19, B:R.19, B:R.19, B:G.22, B:T.41, B:T.41, B:N.90, B:D.191 Salt bridges: B:R.19, B:R.19 NAP.5: 28 residues within 4Å: Chain C: G.16, A.17, S.18, R.19, G.20, I.21, A.40, T.41, L.62, N.63, V.64, N.90, A.91, G.92, I.93, T.113, V.140, G.141, S.142, Y.155, K.159, P.185, G.186, F.187, I.188, T.190, M.192 Ligands: ACT.6 30 PLIP interactions: 30 interactions with chain C Hydrophobic interactions: C:P.185 Hydrogen bonds: C:G.16, C:S.18, C:S.18, C:S.18, C:I.21, C:T.41, C:S.42, C:N.63, C:V.64, C:N.90, C:G.92, C:Y.155, C:K.159, C:I.188, C:I.188, C:T.190, C:D.191 Water bridges: C:G.16, C:R.19, C:R.19, C:R.19, C:R.19, C:R.19, C:G.22, C:N.63, C:N.63, C:N.90 Salt bridges: C:R.19, C:R.19 NAP.7: 29 residues within 4Å: Chain D: G.16, A.17, S.18, R.19, G.20, I.21, A.40, T.41, L.62, N.63, V.64, T.65, N.90, A.91, G.92, I.93, T.113, V.140, G.141, S.142, Y.155, K.159, P.185, G.186, F.187, I.188, T.190, M.192 Ligands: ACT.8 31 PLIP interactions: 31 interactions with chain D Hydrophobic interactions: D:I.21, D:P.185 Hydrogen bonds: D:G.16, D:S.18, D:S.18, D:I.21, D:T.41, D:T.41, D:N.63, D:V.64, D:N.90, D:G.92, D:K.159, D:I.188, D:I.188, D:T.190, D:T.190 Water bridges: D:G.16, D:R.19, D:R.19, D:R.19, D:R.19, D:R.19, D:R.19, D:G.22, D:S.42, D:T.65, D:N.90, D:D.191 Salt bridges: D:R.19, D:R.19

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 6 residues within 4Å: Chain A: S.142, V.143, Y.155, G.186, F.187 Ligands: NAP.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.143, A:F.187 Hydrogen bonds: A:S.142, A:S.142, A:Y.155 Water bridges: A:Q.152 ACT.4: 6 residues within 4Å: Chain B: S.142, V.144, Y.155, F.187, M.192 Ligands: NAP.3 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.144, B:F.187 Hydrogen bonds: B:S.142 Water bridges: B:Q.152 ACT.6: 6 residues within 4Å: Chain C: S.142, V.143, Y.155, G.186, F.187 Ligands: NAP.5 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:V.143, C:F.187 Hydrogen bonds: C:S.142, C:S.142 Water bridges: C:Q.152 ACT.8: 6 residues within 4Å: Chain D: S.142, V.144, Y.155, F.187, M.192 Ligands: NAP.7 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:V.144, D:F.187 Hydrogen bonds: D:S.142, D:Y.155 Water bridges: D:Q.152

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

2010-09-22

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