SMTL ID : 5lby.1

Structure of the human quinone reductase 2 (NQO2) in complex with crenolanib

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 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.5: 3 residues within 4Å: Chain B: H.174, H.178, C.223 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: 25 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, D.118 Ligands: 6T2.3 27 PLIP interactions: 25 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:Y.156, A:E.194, A:R.201, B:N.67 Water bridges: A:K.16, A:E.194, A:E.194 Salt bridges: A:H.12 pi-Stacking: A:F.107 FAD.4: 25 residues within 4Å: Chain A: N.67, Y.68, 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, E.198, R.201, K.202, V.205 Ligands: 6T2.6 25 PLIP interactions: 23 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: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:R.201, A:N.67 Water bridges: B:E.194, B:E.194 Salt bridges: B:H.12 pi-Stacking: B:F.18

2 x 6T2: 1-(2-{5-[(3-Methyloxetan-3-yl)methoxy]-1H-benzimidazol-1-yl}quinolin-8-yl)piperidin-4-amine(Non-covalent)

6T2.3: 14 residues within 4Å: Chain A: W.106, F.107, G.150, G.151, T.152, M.155, N.162, I.195 Chain B: L.121, Q.123, F.127, I.129, F.179 Ligands: FAD.2 10 PLIP interactions: 4 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:F.127, B:I.129, B:F.179, A:W.106 Water bridges: B:Q.123, A:E.194, A:E.194, A:I.195 Hydrogen bonds: A:N.162 pi-Stacking: A:W.106 6T2.6: 13 residues within 4Å: Chain A: Q.123, F.127, I.129, F.179 Chain B: W.106, G.150, G.151, T.152, M.155, N.162, E.194, I.195 Ligands: FAD.4 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.127, A:F.127, A:F.179, B:W.106 Hydrogen bonds: B:N.162, B:E.194 pi-Stacking: B:W.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klaeger, S. et al., The target landscape of clinical kinase drugs. Science (2017)

Release Date

2017-11-29

Peptides

Ribosyldihydronicotinamide dehydrogenase [quinone]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosyldihydronicotinamide dehydrogenase [quinone]

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