SMTL ID : 3ox2.1

X-ray Structural study of quinone reductase II inhibition by compounds with micromolar to nanomolar range IC50 values

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 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, P.193, E.194, R.201, K.202, V.205 Chain B: N.67, Y.68, G.69, D.118 Ligands: 79X.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, A:K.202, B:N.67 Salt bridges: A:H.12 pi-Stacking: A:F.18, A:F.18 FAD.5: 23 residues within 4Å: Chain A: N.67, Y.68, G.69, D.118 Chain B: 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, R.201 Ligands: 79X.3 26 PLIP interactions: 23 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.105, 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: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 Water bridges: B:K.16, A:N.67, A:N.67 Salt bridges: B:H.12 pi-Stacking: B:F.18

2 x 79X: 2-hydroxy-8,9-dimethoxy-6H-isoindolo[2,1-a]indol-6-one(Non-covalent)

79X.3: 11 residues within 4Å: Chain A: G.69, T.72, C.122, F.127, G.175, F.179 Chain B: W.106, F.107, G.151, N.162 Ligands: FAD.5 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.127, A:F.179, B:W.106 Hydrogen bonds: A:T.72, A:Q.123, B:N.162 Water bridges: A:T.72, A:D.118 pi-Stacking: B:W.106 79X.6: 12 residues within 4Å: Chain A: W.106, F.107, G.151, M.155, Y.156, N.162 Chain B: G.69, T.72, F.127, G.175, F.179 Ligands: FAD.2 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:N.162 pi-Stacking: A:W.106 Hydrophobic interactions: B:F.127, B:F.179 Water bridges: B:T.72, B:T.72, B:D.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pegan, S.D. et al., X-ray structural studies of quinone reductase 2 nanomolar range inhibitors. Protein Sci. (2011)

Release Date

2011-05-25

Peptides

Ribosyldihydronicotinamide dehydrogenase [quinone]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosyldihydronicotinamide dehydrogenase [quinone]

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