SMTL ID : 2qwx.1

Crystal Structure of Quinone Reductase II

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.174, H.178, C.223 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.174, A:H.178, A:C.223, A:C.223 ZN.4: 4 residues within 4Å: Chain B: H.174, H.178, C.223, T.224 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.174, B:H.178, B:C.223, B:C.223

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

FAD.2: 26 residues within 4Å: Chain A: H.12, K.16, S.17, F.18, N.19, S.21, P.103, L.104, Y.105, W.106, F.107, T.148, T.149, G.150, G.151, Y.156, E.194, E.198, R.201, K.202, V.205 Chain B: N.67, Y.68, G.69, D.118 Ligands: ML1.6 24 PLIP interactions: 22 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.105, A:Y.105, A:Y.105, B:Y.68 Hydrogen bonds: A:F.18, A:N.19, A:N.19, A:S.21, A:S.21, A:L.104, A:L.104, A:W.106, A:F.107, A:T.148, A:T.148, A:G.150, A:G.151, A:Y.156, A:R.201, B:N.67 Water bridges: A:K.16, A:N.162 Salt bridges: A:H.12 pi-Stacking: A:F.18 FAD.5: 26 residues within 4Å: Chain A: N.67, Y.68, G.69, D.118 Chain B: H.12, S.17, F.18, N.19, S.21, P.103, L.104, Y.105, W.106, F.107, T.148, T.149, G.150, G.151, Y.156, P.193, E.194, E.198, R.201, K.202, V.205 Ligands: ML1.3 23 PLIP interactions: 21 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.105, B:Y.105, B:Y.105, A:Y.68 Hydrogen bonds: B:F.18, B:N.19, B:N.19, B:S.21, B:L.104, B:L.104, B:W.106, B:F.107, B:T.148, B:T.148, B:G.150, B:G.151, B:Y.156, B:Y.156, B:E.194, A:N.67 Water bridges: B:N.162, B:E.194 Salt bridges: B:H.12

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

ML1.3: 8 residues within 4Å: Chain A: F.127, I.129, F.179 Chain B: W.106, G.150, M.155, I.195 Ligands: FAD.5 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.127, A:F.179, A:F.179, B:I.195 Water bridges: A:Q.123 Hydrogen bonds: B:G.150 pi-Stacking: B:W.106 ML1.6: 9 residues within 4Å: Chain A: W.106, G.150, G.151, M.155 Chain B: G.69, Q.123, F.127, F.179 Ligands: FAD.2 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.127, B:F.127 Water bridges: B:Q.123 Hydrogen bonds: A:G.150 pi-Stacking: A:W.106

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

2008-04-29

Peptides

Ribosyldihydronicotinamide dehydrogenase [quinone]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosyldihydronicotinamide dehydrogenase [quinone]

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