SMTL ID : 7o4d.1

QR2 inhibitor from a novel sulfanamide series to tackle age related oxidative stress and cognitive decline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.191, H.195, C.240 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.191, A:H.195, A:C.240, A:C.240 ZN.5: 3 residues within 4Å: Chain B: H.191, H.195, C.240 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.191, B:H.195, B:C.240, B:C.240

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

FAD.2: 23 residues within 4Å: Chain A: H.29, K.33, S.34, F.35, N.36, S.38, P.120, L.121, Y.122, W.123, F.124, T.165, T.166, G.167, G.168, Y.173, P.210, E.211, R.218, K.219 Chain B: N.84, D.135 Ligands: V1Z.4 21 PLIP interactions: 20 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.122, A:Y.122, A:Y.122 Hydrogen bonds: A:F.35, A:N.36, A:N.36, A:S.38, A:S.38, A:L.121, A:L.121, A:W.123, A:F.124, A:T.165, A:T.165, A:G.167, A:G.168, A:Y.173, B:N.84 Salt bridges: A:H.29 pi-Stacking: A:F.35, A:F.35 FAD.6: 21 residues within 4Å: Chain A: D.135 Chain B: H.29, K.33, S.34, F.35, N.36, S.38, P.120, L.121, Y.122, W.123, F.124, T.165, T.166, G.167, G.168, Y.173, P.210, E.211, R.218 Ligands: V1Z.7 22 PLIP interactions: 21 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.122, B:Y.122, B:Y.122 Hydrogen bonds: B:F.35, B:N.36, B:N.36, B:S.38, B:S.38, B:L.121, B:W.123, B:F.124, B:T.165, B:T.165, B:G.167, B:G.168, B:Y.173, B:Y.173 Water bridges: B:H.29, A:N.84 Salt bridges: B:H.29 pi-Stacking: B:F.35, B:F.35

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: A.213, S.214, E.217 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.214

2 x V1Z: 8-methyl-2-(4-methyl-3-piperazin-1-ylsulfonyl-phenyl)imidazo[1,2-a]pyridine(Non-covalent)

V1Z.4: 14 residues within 4Å: Chain A: W.123, F.124, G.167, G.168, M.172, Y.173, N.179 Chain B: F.144, I.146, F.149, Y.150, G.192, F.196 Ligands: FAD.2 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:F.196, A:W.123, A:F.124 pi-Stacking: B:F.196, A:W.123 Hydrogen bonds: A:N.179 V1Z.7: 12 residues within 4Å: Chain A: Q.140, F.144, F.149, Y.150, F.196 Chain B: W.123, F.124, G.167, G.168, M.172, N.179 Ligands: FAD.6 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:F.144, A:F.196, B:W.123, B:F.124 pi-Stacking: A:F.196, B:W.123 Hydrogen bonds: B:Y.173, B:N.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gould, N.L. et al., Specific quinone reductase 2 inhibitors reduce metabolic burden and reverse Alzheimer's disease phenotype in mice. J.Clin.Invest. (2023)

Release Date

2022-08-17

Peptides

Ribosyldihydronicotinamide dehydrogenase [quinone]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosyldihydronicotinamide dehydrogenase [quinone]