SMTL ID : 3ri3.1

Actinorhodin Polyketide Ketoreductase Mutant P94L bound to NADPH and the Inhibitor Emodin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

homo-tetramer

Ligands

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

NDP.1: 28 residues within 4Å: Chain A: G.33, T.35, S.36, G.37, I.38, A.57, R.58, G.59, C.82, D.83, V.84, N.110, A.111, G.112, T.133, I.162, A.163, S.164, Y.177, K.181, P.207, G.208, F.209, V.210, T.212, P.213, M.214 Ligands: EMO.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:P.207, A:V.210 Hydrogen bonds: A:T.35, A:T.35, A:S.36, A:I.38, A:R.58, A:G.59, A:D.83, A:V.84, A:N.110, A:K.181, A:V.210, A:V.210, A:T.212, A:M.214 Water bridges: A:G.39, A:N.110, A:T.133 Salt bridges: A:R.58 NDP.4: 30 residues within 4Å: Chain B: G.33, A.34, T.35, S.36, G.37, I.38, A.57, R.58, G.59, C.82, D.83, V.84, R.85, N.110, A.111, G.112, T.133, I.162, A.163, S.164, Y.177, K.181, P.207, G.208, F.209, V.210, T.212, P.213, M.214 Ligands: EMO.5 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:P.207 Hydrogen bonds: B:G.33, B:T.35, B:S.36, B:S.36, B:S.36, B:I.38, B:R.58, B:G.59, B:D.83, B:V.84, B:N.110, B:K.181, B:V.210, B:V.210, B:T.212, B:M.214 Water bridges: B:G.39, B:N.110 Salt bridges: B:R.58 NDP.7: 28 residues within 4Å: Chain C: G.33, T.35, S.36, G.37, I.38, A.57, R.58, G.59, C.82, D.83, V.84, N.110, A.111, G.112, T.133, I.162, A.163, S.164, Y.177, K.181, P.207, G.208, F.209, V.210, T.212, P.213, M.214 Ligands: EMO.9 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:P.207, C:V.210 Hydrogen bonds: C:T.35, C:S.36, C:I.38, C:R.58, C:G.59, C:D.83, C:D.83, C:V.84, C:N.110, C:Y.177, C:K.181, C:V.210, C:V.210, C:M.214 Water bridges: C:G.39, C:N.110 Salt bridges: C:R.58 NDP.10: 30 residues within 4Å: Chain D: G.33, A.34, T.35, S.36, G.37, I.38, A.57, R.58, G.59, C.82, D.83, V.84, R.85, N.110, A.111, G.112, T.133, I.162, A.163, S.164, Y.177, K.181, P.207, G.208, F.209, V.210, T.212, P.213, M.214 Ligands: EMO.11 24 PLIP interactions: 24 interactions with chain D Hydrophobic interactions: D:P.207 Hydrogen bonds: D:G.33, D:T.35, D:S.36, D:S.36, D:S.36, D:I.38, D:R.58, D:G.59, D:D.83, D:D.83, D:V.84, D:N.110, D:Y.177, D:K.181, D:V.210, D:V.210, D:M.214 Water bridges: D:T.35, D:T.35, D:G.39, D:N.110, D:T.133 Salt bridges: D:R.58

8 x EMO: 3-METHYL-1,6,8-TRIHYDROXYANTHRAQUINONE(Non-covalent)

EMO.2: 10 residues within 4Å: Chain A: L.114, S.164, T.165, G.166, Q.169, V.171, Y.177, V.218, L.278 Ligands: EMO.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.114, A:V.171, A:V.218, A:L.278 Hydrogen bonds: A:S.164, A:S.164, A:G.166, A:Q.169 EMO.3: 12 residues within 4Å: Chain A: S.164, T.165, Y.177, G.208, F.209, M.214, V.218, I.237, V.241, L.278 Ligands: NDP.1, EMO.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.209, A:I.237, A:V.241 Hydrogen bonds: A:S.164, A:T.165, A:Y.177, A:Y.177 EMO.5: 12 residues within 4Å: Chain B: L.114, S.164, T.165, Y.177, G.208, F.209, M.214, V.218, I.237, L.278 Ligands: NDP.4, EMO.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.209, B:I.237, B:L.278 Hydrogen bonds: B:T.165, B:Y.177, B:Y.177 EMO.6: 9 residues within 4Å: Chain B: L.114, S.164, T.165, G.166, Q.169, V.171, Y.177, L.278 Ligands: EMO.5 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.114, B:V.171, B:L.278 Hydrogen bonds: B:S.164, B:S.164, B:T.165, B:G.166, B:Q.169 EMO.8: 10 residues within 4Å: Chain C: L.114, S.164, T.165, G.166, Q.169, V.171, Y.177, V.218, L.278 Ligands: EMO.9 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:L.114, C:V.171, C:V.218, C:L.278 Hydrogen bonds: C:S.164, C:S.164, C:G.166, C:Q.169 EMO.9: 12 residues within 4Å: Chain C: S.164, T.165, Y.177, G.208, F.209, M.214, V.218, I.237, V.241, L.278 Ligands: NDP.7, EMO.8 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.209, C:I.237, C:V.241 Hydrogen bonds: C:S.164, C:Y.177 EMO.11: 12 residues within 4Å: Chain D: L.114, S.164, T.165, Y.177, G.208, F.209, M.214, V.218, I.237, L.278 Ligands: NDP.10, EMO.12 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:F.209, D:I.237, D:L.278 Hydrogen bonds: D:Y.177 EMO.12: 9 residues within 4Å: Chain D: L.114, S.164, T.165, G.166, Q.169, V.171, Y.177, L.278 Ligands: EMO.11 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:L.114, D:V.171, D:L.278 Hydrogen bonds: D:S.164, D:S.164, D:T.165, D:G.166, D:Q.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Javidpour, P. et al., Structural and Biochemical Analyses of Regio- and Stereospecificities Observed in a Type II Polyketide Ketoreductase. Biochemistry (2011)

Release Date

2011-06-29

Peptides

ketoacyl reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
B

D
A

ketoacyl reductase

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