SMTL ID : 5kgw.1

HIV1 catalytic core domain in complex with inhibitor: (2~{S})-2-[3-(3,4-dihydro-2~{H}-chromen-6-yl)-1-methyl-indol-2-yl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: E.20, K.22, R.117, E.121, H.122, L.123 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.117, A:L.123 Water bridges: A:K.124 Salt bridges: A:K.22, A:H.122 SO4.2: 4 residues within 4Å: Chain A: C.16, T.17, H.18, K.110 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.18 Salt bridges: A:H.18, A:K.110 SO4.3: 6 residues within 4Å: Chain A: T.44, G.45, Q.46, S.74, T.75, T.76 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.45, A:Q.46, A:S.74, A:T.76, A:T.76 Water bridges: A:T.75 SO4.5: 6 residues within 4Å: Chain B: E.20, K.22, R.117, E.121, H.122, L.123 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.117, B:L.123 Water bridges: B:K.124 Salt bridges: B:K.22, B:H.122 SO4.6: 4 residues within 4Å: Chain B: C.16, T.17, H.18, K.110 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.18 Salt bridges: B:H.18, B:K.110 SO4.7: 6 residues within 4Å: Chain B: T.44, G.45, Q.46, S.74, T.75, T.76 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.44, B:G.45, B:Q.46, B:S.74, B:T.76, B:T.76 Water bridges: B:T.75

2 x 7SK: (2S)-tert-butoxy[3-(3,4-dihydro-2H-1-benzopyran-6-yl)-1-methyl-1H-indol-2-yl]acetic acid(Non-covalent)

7SK.4: 16 residues within 4Å: Chain A: Q.119, A.120, E.121, H.122, K.124, T.125, M.129 Chain B: Q.46, A.49, Y.50, L.53, T.75, T.76, A.79, A.80, W.83 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:T.76, B:A.79, B:A.80, A:T.125 Hydrogen bonds: A:E.121, A:H.122, A:T.125, A:T.125 Salt bridges: A:H.122 7SK.8: 16 residues within 4Å: Chain A: Q.46, A.49, Y.50, L.53, T.75, T.76, A.79, A.80, W.83 Chain B: Q.119, A.120, E.121, H.122, K.124, T.125, M.129 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:T.125, A:T.76, A:A.79, A:A.80 Hydrogen bonds: B:E.121, B:H.122, B:T.125 Salt bridges: B:H.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, P.A. et al., Indole-based allosteric inhibitors of HIV-1 integrase. Bioorg.Med.Chem.Lett. (2016)

Release Date

2016-10-19

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Integrase

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