SMTL ID : 1ja9.1

Crystal structure of 1,3,6,8-tetrahydroxynaphthalene reductase in complex with NADPH and pyroquilon

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

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

NDP.1: 29 residues within 4Å: Chain A: G.28, R.31, G.32, I.33, N.51, Y.52, G.53, S.54, S.55, A.78, D.79, I.80, N.106, S.107, G.108, L.129, T.154, S.155, S.156, Y.170, K.174, P.200, G.201, G.202, V.203, T.205, D.206, M.207 Ligands: PYQ.2 34 PLIP interactions: 34 interactions with chain A Hydrophobic interactions: A:I.33, A:P.200 Hydrogen bonds: A:R.31, A:R.31, A:I.33, A:G.53, A:S.54, A:S.55, A:S.55, A:D.79, A:I.80, A:N.106, A:S.107, A:G.108, A:K.174, A:V.203, A:V.203, A:T.205, A:T.205, A:D.206, A:M.207 Water bridges: A:G.30, A:R.31, A:R.31, A:R.31, A:R.31, A:R.31, A:R.31, A:R.31, A:G.34, A:S.81, A:N.106 Salt bridges: A:R.31, A:R.31 NDP.3: 29 residues within 4Å: Chain B: G.28, R.31, G.32, I.33, N.51, Y.52, G.53, S.54, S.55, A.78, D.79, I.80, N.106, S.107, G.108, L.129, T.154, S.155, S.156, Y.170, K.174, P.200, G.201, G.202, V.203, T.205, D.206, M.207 Ligands: PYQ.4 34 PLIP interactions: 34 interactions with chain B Hydrophobic interactions: B:I.33, B:P.200 Hydrogen bonds: B:R.31, B:R.31, B:I.33, B:G.53, B:S.54, B:S.55, B:S.55, B:D.79, B:I.80, B:N.106, B:S.107, B:G.108, B:K.174, B:V.203, B:V.203, B:T.205, B:T.205, B:D.206, B:M.207 Water bridges: B:G.30, B:R.31, B:R.31, B:R.31, B:R.31, B:R.31, B:R.31, B:R.31, B:G.34, B:S.81, B:N.106 Salt bridges: B:R.31, B:R.31 NDP.5: 29 residues within 4Å: Chain C: G.28, R.31, G.32, I.33, N.51, Y.52, G.53, S.54, S.55, A.78, D.79, I.80, N.106, S.107, G.108, L.129, T.154, S.155, S.156, Y.170, K.174, P.200, G.201, G.202, V.203, T.205, D.206, M.207 Ligands: PYQ.6 35 PLIP interactions: 35 interactions with chain C Hydrophobic interactions: C:I.33, C:P.200 Hydrogen bonds: C:R.31, C:R.31, C:I.33, C:G.53, C:S.54, C:S.55, C:S.55, C:D.79, C:D.79, C:I.80, C:N.106, C:S.107, C:G.108, C:Y.170, C:K.174, C:V.203, C:V.203, C:T.205, C:D.206, C:M.207 Water bridges: C:G.30, C:R.31, C:R.31, C:R.31, C:R.31, C:R.31, C:R.31, C:R.31, C:G.34, C:S.81, C:N.106 Salt bridges: C:R.31, C:R.31 NDP.7: 29 residues within 4Å: Chain D: G.28, R.31, G.32, I.33, N.51, Y.52, G.53, S.54, S.55, A.78, D.79, I.80, N.106, S.107, G.108, L.129, T.154, S.155, S.156, Y.170, K.174, P.200, G.201, G.202, V.203, T.205, D.206, M.207 Ligands: PYQ.8 35 PLIP interactions: 35 interactions with chain D Hydrophobic interactions: D:I.33, D:P.200 Hydrogen bonds: D:R.31, D:R.31, D:I.33, D:G.53, D:S.54, D:S.55, D:S.55, D:D.79, D:D.79, D:I.80, D:N.106, D:S.107, D:G.108, D:Y.170, D:K.174, D:V.203, D:V.203, D:T.205, D:D.206, D:M.207 Water bridges: D:G.30, D:R.31, D:R.31, D:R.31, D:R.31, D:R.31, D:R.31, D:R.31, D:G.34, D:S.81, D:N.106 Salt bridges: D:R.31, D:R.31

4 x PYQ: PYROQUILON(Non-covalent)

PYQ.2: 12 residues within 4Å: Chain A: E.110, S.156, I.157, Y.170, G.201, G.202, M.207, F.208, S.212, Y.215, I.274 Ligands: NDP.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.157, A:F.208, A:Y.215, A:Y.215 Hydrogen bonds: A:S.156, A:Y.170 pi-Stacking: A:Y.215, A:Y.215 PYQ.4: 12 residues within 4Å: Chain B: E.110, S.156, I.157, Y.170, G.201, G.202, M.207, F.208, S.212, Y.215, I.274 Ligands: NDP.3 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.157, B:F.208, B:Y.215, B:Y.215 Hydrogen bonds: B:S.156, B:Y.170 pi-Stacking: B:Y.215, B:Y.215 PYQ.6: 12 residues within 4Å: Chain C: E.110, S.156, I.157, Y.170, G.201, G.202, M.207, F.208, S.212, Y.215, I.274 Ligands: NDP.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:I.157, C:F.208, C:Y.215, C:Y.215 Hydrogen bonds: C:S.156 pi-Stacking: C:Y.215, C:Y.215 PYQ.8: 12 residues within 4Å: Chain D: E.110, S.156, I.157, Y.170, G.201, G.202, M.207, F.208, S.212, Y.215, I.274 Ligands: NDP.7 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:I.157, D:F.208, D:Y.215, D:Y.215 Hydrogen bonds: D:S.156 pi-Stacking: D:Y.215, D:Y.215

Links

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Citation

Liao, D.I. et al., A structural account of substrate and inhibitor specificity differences between two naphthol reductases. Biochemistry (2001)

Release Date

2001-09-19

Peptides

1,3,6,8-tetrahydroxynaphthalene reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

1,3,6,8-tetrahydroxynaphthalene reductase