SMTL ID : 7wce.1

Crystal structure of HIV-1 integrase catalytic core domain in complex with (2S)-2-(tert-Butoxy)-2-(10-fluoro-2-(2-hydroxy-4-methylphenyl)-1,4-dimethyl-5-(methylsulfonyl)-5,6-dihydrophenanthridin-3-yl)acetic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: T.20, H.21, K.113 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.21, A:H.21 Water bridges: A:N.109 Salt bridges: A:H.21, A:K.113 SO4.2: 5 residues within 4Å: Chain A: K.25, R.120, E.124, H.125, L.126 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.120, A:L.126 Water bridges: A:K.25, A:K.25, A:K.127 Salt bridges: A:K.25, A:H.125

1 x 8Z3: (2S)-2-[10-fluoranyl-1,4-dimethyl-2-(4-methyl-2-oxidanyl-phenyl)-5-methylsulfonyl-6H-phenanthridin-3-yl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid(Non-covalent)

8Z3.3: 6 residues within 4Å: Chain A: Q.49, T.78, T.79, A.82, A.83, W.86 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.78, A:W.86

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: T.47, G.48, Q.49, S.77, T.79 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.48, A:Q.49, A:Q.49, A:S.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taoda, Y. et al., Discovery of tricyclic HIV-1 integrase-LEDGF/p75 allosteric inhibitors by intramolecular direct arylation reaction. Bioorg.Med.Chem.Lett. (2022)

Release Date

2022-09-07

Peptides

Integrase catalytic: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Integrase catalytic

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