- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.56 Å
- Oligo State
- homo-hexamer
- Ligands
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x Y05: N-[(1S)-1-{(3P)-3-{4-chloro-3-[(methanesulfonyl)amino]-1-methyl-1H-indazol-7-yl}-7-[(2R,6S)-2,6-dimethylmorpholin-4-yl]-4-oxo-3,4-dihydroquinazolin-2-yl}-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-3-(difluoromethyl)-5,5-difluoro-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide(Non-covalent)
Y05.4: 22 residues within 4Å:- Chain A: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
- Chain F: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.177
20 PLIP interactions:15 interactions with chain A, 5 interactions with chain F- Hydrophobic interactions: A:L.57, A:M.67, A:K.71, A:K.71, F:I.38, F:Y.170, F:Y.170
- Hydrogen bonds: A:N.54, A:N.58, A:N.58, A:K.71, A:N.75, A:T.108
- Water bridges: A:N.75
- pi-Cation interactions: A:K.71, A:K.71
- Halogen bonds: A:K.71, A:N.75, F:Y.170, F:R.174
Y05.7: 25 residues within 4Å:- Chain A: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.180, K.183, N.184
- Chain B: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
- Ligands: EDO.1
22 PLIP interactions:16 interactions with chain B, 6 interactions with chain A- Hydrophobic interactions: B:L.57, B:K.71, B:K.71, A:I.38, A:Y.170
- Hydrogen bonds: B:N.54, B:N.58, B:N.58, B:K.71, B:N.75, B:T.108, A:Q.180, A:N.184
- Water bridges: B:Q.68, B:N.75
- pi-Cation interactions: B:K.71, B:K.71, B:K.71
- Halogen bonds: B:K.71, B:N.75, A:R.174, A:K.183
Y05.11: 22 residues within 4Å:- Chain B: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.177
- Chain C: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
20 PLIP interactions:15 interactions with chain C, 5 interactions with chain B- Hydrophobic interactions: C:L.57, C:M.67, C:K.71, C:K.71, B:I.38, B:Y.170, B:Y.170
- Hydrogen bonds: C:N.54, C:N.58, C:N.58, C:K.71, C:N.75, C:T.108
- Water bridges: C:N.75
- pi-Cation interactions: C:K.71, C:K.71
- Halogen bonds: C:K.71, C:N.75, B:Y.170, B:R.174
Y05.14: 25 residues within 4Å:- Chain C: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.180, K.183, N.184
- Chain D: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
- Ligands: EDO.8
22 PLIP interactions:6 interactions with chain C, 16 interactions with chain D- Hydrophobic interactions: C:I.38, C:Y.170, D:L.57, D:K.71, D:K.71
- Hydrogen bonds: C:Q.180, C:N.184, D:N.54, D:N.58, D:N.58, D:K.71, D:N.75, D:T.108
- Halogen bonds: C:R.174, C:K.183, D:K.71, D:N.75
- Water bridges: D:Q.68, D:N.75
- pi-Cation interactions: D:K.71, D:K.71, D:K.71
Y05.18: 22 residues within 4Å:- Chain D: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.177
- Chain E: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
20 PLIP interactions:5 interactions with chain D, 15 interactions with chain E- Hydrophobic interactions: D:I.38, D:Y.170, D:Y.170, E:L.57, E:M.67, E:K.71, E:K.71
- Halogen bonds: D:Y.170, D:R.174, E:K.71, E:N.75
- Hydrogen bonds: E:N.54, E:N.58, E:N.58, E:K.71, E:N.75, E:T.108
- Water bridges: E:N.75
- pi-Cation interactions: E:K.71, E:K.71
Y05.21: 25 residues within 4Å:- Chain E: I.38, P.39, S.42, I.136, Y.170, L.173, R.174, Q.180, K.183, N.184
- Chain F: N.54, L.57, N.58, Q.64, M.67, Q.68, L.70, K.71, I.74, N.75, A.106, G.107, T.108, Y.131
- Ligands: EDO.15
22 PLIP interactions:6 interactions with chain E, 16 interactions with chain F- Hydrophobic interactions: E:I.38, E:Y.170, F:L.57, F:K.71, F:K.71
- Hydrogen bonds: E:Q.180, E:N.184, F:N.54, F:N.58, F:N.58, F:K.71, F:N.75, F:T.108
- Halogen bonds: E:R.174, E:K.183, F:K.71, F:N.75
- Water bridges: F:Q.68, F:N.75
- pi-Cation interactions: F:K.71, F:K.71, F:K.71
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gillis, E.P. et al., Potent Long-Acting Inhibitors Targeting the HIV-1 Capsid Based on a Versatile Quinazolin-4-one Scaffold. J.Med.Chem. (2023)
- Release Date
- 2023-02-15
- Peptides
- HIV-1 capsid: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.56 Å
- Oligo State
- homo-hexamer
- Ligands
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x Y05: N-[(1S)-1-{(3P)-3-{4-chloro-3-[(methanesulfonyl)amino]-1-methyl-1H-indazol-7-yl}-7-[(2R,6S)-2,6-dimethylmorpholin-4-yl]-4-oxo-3,4-dihydroquinazolin-2-yl}-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-3-(difluoromethyl)-5,5-difluoro-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gillis, E.P. et al., Potent Long-Acting Inhibitors Targeting the HIV-1 Capsid Based on a Versatile Quinazolin-4-one Scaffold. J.Med.Chem. (2023)
- Release Date
- 2023-02-15
- Peptides
- HIV-1 capsid: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B