- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x RWR: (2S)-2-[3-cyclopropyl-2-(3,4-dihydro-2H-chromen-6-yl)-6-methyl-phenyl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid(Non-covalent)
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 5 residues within 4Å:- Chain A: A.47, K.48
- Chain D: D.188, Q.189, E.191
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:A.47
EDO.3: 4 residues within 4Å:- Chain A: V.16, W.17
- Chain B: Q.116, T.146
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:W.17, B:Q.116
- Water bridges: B:T.145
EDO.4: 4 residues within 4Å:- Chain A: Q.3, N.4, F.5, R.6
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:F.5, A:R.6
EDO.8: 3 residues within 4Å:- Chain B: T.87, H.88, K.180
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.87, B:T.87, B:H.88, B:H.88, B:K.180
EDO.9: 5 residues within 4Å:- Chain B: E.113, T.114, G.115, S.140, N.141
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.113, B:G.115
- Water bridges: B:Q.116
EDO.10: 5 residues within 4Å:- Chain B: V.186, Q.189
- Chain C: R.51, Y.53
- Chain D: W.153
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:Q.189, D:W.153
EDO.11: 5 residues within 4Å:- Chain A: D.52
- Chain B: C.151, W.152, G.155, I.156
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:G.155, B:I.156, B:I.156
EDO.13: 5 residues within 4Å:- Chain D: L.89, E.90, I.183, G.184, R.187
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:I.183
- Water bridges: D:G.184
EDO.14: 2 residues within 4Å:- Chain D: E.90, K.92
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:E.90
EDO.15: 7 residues within 4Å:- Chain A: R.51, Y.53
- Chain B: W.153
- Chain D: V.186, Q.189, M.199, I.203
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:W.153, D:Q.189
EDO.16: 5 residues within 4Å:- Chain D: E.113, T.114, G.115, S.140, N.141
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:G.115
- Water bridges: D:Q.116, D:S.144, D:S.144
EDO.17: 4 residues within 4Å:- Chain B: K.194
- Chain D: Q.116, E.117
- Ligands: RWR.6
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain B- Hydrogen bonds: D:E.117, B:K.194
EDO.18: 3 residues within 4Å:- Chain D: G.184, R.187, D.188
No protein-ligand interaction detected (PLIP)EDO.19: 4 residues within 4Å:- Chain B: E.117, Y.120
- Chain D: V.109, K.194
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:E.117, D:V.109
- Water bridges: B:E.117
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.7: 2 residues within 4Å:- Chain B: D.85, D.137
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.85, B:D.137, H2O.2, H2O.2, H2O.3
MG.12: 2 residues within 4Å:- Chain D: D.85, D.137
6 PLIP interactions:2 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:D.85, D:D.137, H2O.5, H2O.5, H2O.7, H2O.8
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bonnard, D. et al., Biological and Structural Analyses of New Potent Allosteric Inhibitors of HIV-1 Integrase. Antimicrob.Agents Chemother. (2023)
- Release Date
- 2023-06-07
- Peptides
- Integrase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x RWR: (2S)-2-[3-cyclopropyl-2-(3,4-dihydro-2H-chromen-6-yl)-6-methyl-phenyl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid(Non-covalent)
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bonnard, D. et al., Biological and Structural Analyses of New Potent Allosteric Inhibitors of HIV-1 Integrase. Antimicrob.Agents Chemother. (2023)
- Release Date
- 2023-06-07
- Peptides
- Integrase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D