SMTL ID : 2rhr.1

P94L actinorhodin ketordeuctase mutant, with NADPH and Inhibitor Emodin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 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.29, T.31, S.32, G.33, I.34, A.53, R.54, G.55, C.78, D.79, V.80, R.81, N.106, A.107, G.108, T.129, I.158, A.159, S.160, Y.173, K.177, P.203, G.204, F.205, V.206, T.208, P.209, M.210 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:P.203 Hydrogen bonds: A:G.29, A:T.31, A:S.32, A:S.32, A:I.34, A:R.54, A:R.54, A:G.55, A:D.79, A:V.80, A:N.106, A:K.177, A:V.206, A:V.206, A:T.208, A:M.210 Salt bridges: A:R.54 NDP.2: 28 residues within 4Å: Chain B: G.29, A.30, T.31, S.32, G.33, I.34, A.53, R.54, G.55, C.78, D.79, V.80, R.81, N.106, A.107, G.108, I.158, A.159, S.160, Y.173, K.177, P.203, F.205, V.206, T.208, P.209, M.210 Ligands: EMO.3 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:P.203, B:V.206 Hydrogen bonds: B:G.29, B:T.31, B:S.32, B:S.32, B:I.34, B:R.54, B:G.55, B:D.79, B:V.80, B:N.106, B:K.177, B:V.206, B:V.206, B:T.208, B:M.210 Water bridges: B:G.35, B:G.35 Salt bridges: B:R.54 NDP.5: 28 residues within 4Å: Chain C: G.29, T.31, S.32, G.33, I.34, A.53, R.54, G.55, C.78, D.79, V.80, R.81, N.106, A.107, G.108, T.129, I.158, A.159, S.160, Y.173, K.177, P.203, G.204, F.205, V.206, T.208, P.209, M.210 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:P.203 Hydrogen bonds: C:G.29, C:T.31, C:S.32, C:S.32, C:I.34, C:R.54, C:R.54, C:G.55, C:D.79, C:D.79, C:V.80, C:N.106, C:Y.173, C:K.177, C:V.206, C:V.206, C:M.210 Water bridges: C:T.31 Salt bridges: C:R.54 NDP.6: 28 residues within 4Å: Chain D: G.29, A.30, T.31, S.32, G.33, I.34, A.53, R.54, G.55, C.78, D.79, V.80, R.81, N.106, A.107, G.108, I.158, A.159, S.160, Y.173, K.177, P.203, F.205, V.206, T.208, P.209, M.210 Ligands: EMO.7 24 PLIP interactions: 24 interactions with chain D Hydrophobic interactions: D:P.203, D:V.206 Hydrogen bonds: D:G.29, D:T.31, D:S.32, D:S.32, D:I.34, D:R.54, D:G.55, D:D.79, D:D.79, D:V.80, D:N.106, D:Y.173, D:K.177, D:V.206, D:V.206, D:M.210 Water bridges: D:T.31, D:T.31, D:G.35, D:G.35, D:T.129 Salt bridges: D:R.54

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

EMO.3: 14 residues within 4Å: Chain B: L.110, S.160, T.161, Y.173, G.204, F.205, M.210, V.214, I.233, R.236, V.237, L.274 Ligands: NDP.2, EMO.4 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.110, B:F.205, B:I.233, B:R.236, B:V.237 Hydrogen bonds: B:S.160, B:T.161, B:Y.173, B:Y.173, B:F.205, B:M.210 EMO.4: 11 residues within 4Å: Chain B: S.160, T.161, G.162, Q.165, V.167, Y.173, V.214, Y.218, R.236, L.274 Ligands: EMO.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:V.167, B:V.167, B:V.214, B:L.274 Hydrogen bonds: B:S.160, B:S.160, B:T.161, B:Q.165, B:R.236 EMO.7: 14 residues within 4Å: Chain D: L.110, S.160, T.161, Y.173, G.204, F.205, M.210, V.214, I.233, R.236, V.237, L.274 Ligands: NDP.6, EMO.8 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:L.110, D:F.205, D:I.233, D:R.236, D:V.237 Hydrogen bonds: D:S.160, D:Y.173, D:F.205, D:M.210 EMO.8: 11 residues within 4Å: Chain D: S.160, T.161, G.162, Q.165, V.167, Y.173, V.214, Y.218, R.236, L.274 Ligands: EMO.7 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:V.167, D:V.167, D:V.214, D:L.274 Hydrogen bonds: D:S.160, D:S.160, D:T.161, D:Q.165, D:Y.218, D:R.236

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Korman, T.P. et al., Inhibition kinetics and emodin cocrystal structure of a type II polyketide ketoreductase. Biochemistry (2008)

Release Date

2008-08-19

Peptides

Actinorhodin Polyketide Ketoreductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
B

D
A

Actinorhodin Polyketide Ketoreductase