SMTL ID : 2qx4.1

Crystal Structure of Quinone Reductase II

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 27 residues within 4Å: Chain A: H.11, K.15, S.16, F.17, N.18, S.20, P.102, L.103, Y.104, W.105, F.106, T.147, T.148, G.149, G.150, Y.155, P.192, E.193, E.197, R.200, K.201, V.204 Chain B: N.66, Y.67, G.68, D.117 Ligands: ML1.5 26 PLIP interactions: 4 interactions with chain B, 22 interactions with chain A Hydrophobic interactions: B:Y.67, A:Y.104, A:Y.104, A:Y.104 Water bridges: B:N.66, B:N.66, B:N.66, A:K.15, A:N.161 Hydrogen bonds: A:F.17, A:N.18, A:N.18, A:S.20, A:S.20, A:L.103, A:L.103, A:W.105, A:F.106, A:T.147, A:T.147, A:G.149, A:G.150, A:Y.155 Salt bridges: A:H.11 pi-Stacking: A:F.17, A:F.106 FAD.4: 27 residues within 4Å: Chain A: N.66, Y.67, G.68, D.117 Chain B: H.11, K.15, S.16, F.17, N.18, S.20, P.102, L.103, Y.104, W.105, F.106, T.147, T.148, G.149, G.150, Y.155, P.192, E.193, E.197, R.200, K.201, V.204 Ligands: ML1.2 25 PLIP interactions: 23 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.104, B:Y.104, B:Y.104, A:Y.67 Hydrogen bonds: B:F.17, B:N.18, B:N.18, B:S.20, B:S.20, B:L.103, B:L.103, B:W.105, B:F.106, B:T.147, B:T.147, B:G.149, B:G.150, B:Y.155, B:Y.155, B:E.193, B:E.197, A:N.66 Water bridges: B:N.161 Salt bridges: B:H.11 pi-Stacking: B:F.17

2 x ML1: N-[2-(5-methoxy-1H-indol-3-yl)ethyl]acetamide(Non-covalent)

ML1.2: 8 residues within 4Å: Chain A: F.126, I.128, F.178 Chain B: W.105, G.149, G.150, M.154 Ligands: FAD.4 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.126, A:I.128, A:F.178 pi-Stacking: B:W.105 ML1.5: 12 residues within 4Å: Chain A: W.105, F.106 Chain B: Y.67, G.68, T.71, D.117, C.121, Q.122, F.126, G.174, F.178 Ligands: FAD.1 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.67, B:F.126 Hydrogen bonds: B:T.71, B:Q.122 Water bridges: B:D.117

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain A: H.173, H.177, C.222 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.173, A:H.177, A:C.222, A:C.222 ZN.6: 4 residues within 4Å: Chain B: H.173, H.177, C.222, T.223 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.173, B:H.177, B:C.222, B:C.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Calamini, B. et al., Kinetic, thermodynamic and X-ray structural insights into the interaction of melatonin and analogues with quinone reductase 2. Biochem.J. (2008)

Release Date

2008-09-09

Peptides

Ribosyldihydronicotinamide dehydrogenase [quinone]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosyldihydronicotinamide dehydrogenase [quinone]

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