SMTL ID : 7t9o.1

HIV Integrase in complex with Compound-25

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.42, R.137, E.141, H.142, L.143 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.137, A:L.143 Water bridges: A:K.42, A:K.42, A:K.144 Salt bridges: A:K.42, A:H.142 SO4.2: 3 residues within 4Å: Chain A: T.37, H.38, K.130 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.38 Water bridges: A:K.130 Salt bridges: A:H.38, A:K.130 SO4.3: 4 residues within 4Å: Chain A: G.65, S.94, T.95, T.96 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.65, A:T.95, A:T.96, A:T.96 Water bridges: A:Q.66, A:T.95 SO4.6: 5 residues within 4Å: Chain B: K.42, R.137, E.141, H.142, L.143 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.137, B:L.143 Water bridges: B:K.42, B:K.42, B:K.144 Salt bridges: B:K.42, B:H.142 SO4.7: 3 residues within 4Å: Chain B: T.37, H.38, K.130 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.37, B:H.38 Water bridges: B:K.130 Salt bridges: B:H.38, B:K.130 SO4.8: 4 residues within 4Å: Chain B: G.65, S.94, T.95, T.96 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.65, B:T.95, B:T.96, B:T.96 Water bridges: B:Q.66, B:T.95

2 x GEI: (2S)-tert-butoxy[4-(4,4-dimethylpiperidin-1-yl)-5-{4-[2-(4-fluorophenyl)ethoxy]phenyl}-2,6-dimethylpyridin-3-yl]acetic acid(Non-covalent)

GEI.4: 18 residues within 4Å: Chain A: Q.66, A.69, Y.70, L.73, T.95, T.96, K.98, A.99, A.100, W.102, W.103 Chain B: Q.139, A.140, E.141, H.142, K.144, T.145, M.149 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Q.66, A:Y.70, A:T.95, A:T.96, A:A.99, A:W.102 Water bridges: A:Q.66 Hydrogen bonds: B:E.141, B:H.142 Salt bridges: B:H.142 GEI.9: 18 residues within 4Å: Chain A: Q.139, A.140, E.141, H.142, K.144, T.145, M.149 Chain B: Q.66, A.69, Y.70, L.73, T.95, T.96, K.98, A.99, A.100, W.102, W.103 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Q.66, B:Y.70, B:T.95, B:T.96, B:A.99, B:W.102 Water bridges: B:Q.66 Hydrogen bonds: A:E.141, A:H.142, A:T.145 Salt bridges: A:H.142

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: E.56, A.57, E.58, F.71, K.74, L.75, R.78 Chain B: R.78 Ligands: GOL.10 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.78, A:A.57, A:E.58, A:R.78 GOL.10: 9 residues within 4Å: Chain A: R.78 Chain B: E.56, A.57, E.58, F.71, K.74, L.75, R.78 Ligands: GOL.5 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.56, B:A.57, B:R.78, A:R.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Naidu, B.N. et al., Design, Synthesis, and Preclinical Profiling of GSK3739936 (BMS-986180), an Allosteric Inhibitor of HIV-1 Integrase with Broad-Spectrum Activity toward 124/125 Polymorphs. J.Med.Chem. (2022)

Release Date

2022-04-06

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Integrase

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