SMTL ID : 7yb2.1

Crystal Structure of anthrol reductase (CbAR) in complex with NADP+ and emodin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

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

EMO.1: 12 residues within 4Å: Chain A: S.153, N.154, Y.167, G.198, G.199, M.204, F.205, V.208, S.209, Y.212, A.228 Ligands: NAP.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.205, A:F.205, A:Y.212, A:A.228 Hydrogen bonds: A:N.154, A:Y.167, A:Y.167 pi-Stacking: A:Y.212, A:Y.212 EMO.4: 13 residues within 4Å: Chain B: S.153, N.154, T.155, Y.167, G.198, G.199, M.204, F.205, V.208, S.209, Y.212, A.228 Ligands: NAP.5 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:T.155, B:F.205, B:F.205, B:Y.212, B:A.228 Hydrogen bonds: B:S.153, B:N.154, B:Y.167, B:Y.167 pi-Stacking: B:Y.212, B:Y.212 EMO.6: 12 residues within 4Å: Chain C: S.153, N.154, Y.167, G.198, G.199, M.204, F.205, V.208, S.209, Y.212, A.228 Ligands: NAP.7 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:F.205, C:Y.212, C:A.228 Hydrogen bonds: C:S.153, C:N.154, C:Y.167, C:Y.212 pi-Stacking: C:Y.212, C:Y.212 EMO.9: 12 residues within 4Å: Chain D: S.153, N.154, T.155, Y.167, G.198, G.199, M.204, F.205, V.208, S.209, Y.212 Ligands: NAP.10 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:T.155, D:F.205, D:F.205, D:Y.212 Hydrogen bonds: D:S.153, D:N.154, D:Y.167, D:Y.212 pi-Stacking: D:Y.212, D:Y.212 pi-Cation interactions: D:H.164

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

NAP.2: 29 residues within 4Å: Chain A: G.25, R.28, G.29, I.30, N.48, Y.49, A.50, N.51, S.52, A.75, D.76, V.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, M.204 Ligands: EMO.1 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:P.197 Hydrogen bonds: A:R.28, A:R.28, A:I.30, A:A.50, A:N.51, A:N.51, A:S.52, A:S.52, A:D.76, A:V.77, A:R.78, A:N.103, A:S.104, A:G.105, A:K.171, A:T.200, A:T.200, A:T.202, A:M.204 Water bridges: A:G.27, A:R.28, A:R.28, A:R.28, A:R.28, A:R.28, A:G.31, A:R.78, A:N.103, A:D.203 Salt bridges: A:R.28, A:R.28 NAP.5: 30 residues within 4Å: Chain B: G.25, R.28, G.29, I.30, N.48, Y.49, A.50, N.51, S.52, A.75, D.76, V.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, D.203, M.204 Ligands: EMO.4 32 PLIP interactions: 32 interactions with chain B Hydrophobic interactions: B:P.197 Hydrogen bonds: B:R.28, B:R.28, B:I.30, B:A.50, B:N.51, B:N.51, B:S.52, B:D.76, B:V.77, B:R.78, B:N.103, B:S.104, B:G.105, B:K.171, B:T.200, B:T.200, B:T.202, B:D.203, B:M.204 Water bridges: B:G.27, B:R.28, B:R.28, B:R.28, B:R.28, B:G.31, B:R.78, B:N.103, B:D.203, B:D.203 Salt bridges: B:R.28, B:R.28 NAP.7: 30 residues within 4Å: Chain C: G.25, R.28, G.29, I.30, N.48, Y.49, A.50, N.51, S.52, A.75, D.76, V.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, D.203, M.204 Ligands: EMO.6 30 PLIP interactions: 30 interactions with chain C Hydrophobic interactions: C:P.197 Hydrogen bonds: C:R.28, C:R.28, C:I.30, C:A.50, C:N.51, C:S.52, C:D.76, C:D.76, C:V.77, C:R.78, C:N.103, C:S.104, C:G.105, C:Y.167, C:K.171, C:T.200, C:T.200, C:D.203, C:M.204 Water bridges: C:G.27, C:R.28, C:R.28, C:R.28, C:G.31, C:N.51, C:R.78, C:N.103 Salt bridges: C:R.28, C:R.28 NAP.10: 30 residues within 4Å: Chain D: G.25, R.28, G.29, I.30, N.48, Y.49, A.50, N.51, S.52, A.75, D.76, V.77, R.78, N.103, S.104, G.105, L.126, T.151, S.152, S.153, Y.167, K.171, P.197, G.198, G.199, T.200, T.202, M.204 Ligands: EMO.9, GOL.11 32 PLIP interactions: 32 interactions with chain D Hydrophobic interactions: D:P.197 Hydrogen bonds: D:R.28, D:R.28, D:I.30, D:A.50, D:N.51, D:N.51, D:S.52, D:S.52, D:D.76, D:D.76, D:V.77, D:R.78, D:N.103, D:S.104, D:G.105, D:Y.167, D:K.171, D:T.200, D:T.200, D:T.202, D:D.203, D:M.204 Water bridges: D:G.27, D:R.28, D:R.28, D:R.28, D:G.31, D:R.78, D:N.103 Salt bridges: D:R.28, D:R.28

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: H.37, L.40, R.245 Chain C: H.11, E.254 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:H.37, A:R.245 Water bridges: A:H.37, C:H.11, C:E.254 GOL.8: 5 residues within 4Å: Chain C: N.51, S.52, P.53, T.54, H.55 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.54, C:T.54, C:H.55, C:H.55 GOL.11: 6 residues within 4Å: Chain D: R.28, V.107, D.203, M.204, D.207 Ligands: NAP.10 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.28, D:R.28, D:D.207, D:D.207 GOL.12: 9 residues within 4Å: Chain B: P.13, F.249, E.254 Chain D: G.14, H.37, L.41, R.245, G.248, F.249 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:E.254, D:F.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hou, X. et al., Structural analysis of an anthrol reductase inspires enantioselective synthesis of enantiopure hydroxycycloketones and beta-halohydrins. Nat Commun (2023)

Release Date

2023-06-07

Peptides

Versicolorin reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
A

Versicolorin reductase

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