SMTL ID : 5hrn.1

HIV Integrase Catalytic Domain containing F185K mutation complexed with GSK0002

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

4 x CAC: CACODYLATE ION(Non-covalent)

CAC.1: 5 residues within 4Å: Chain A: D.16, C.17, E.44, T.49, N.72 No protein-ligand interaction detected (PLIP) CAC.2: 6 residues within 4Å: Chain A: F.73, V.78, C.82, I.87, K.88, Q.89 No protein-ligand interaction detected (PLIP) CAC.7: 5 residues within 4Å: Chain B: D.16, C.17, E.44, T.49, N.72 No protein-ligand interaction detected (PLIP) CAC.8: 6 residues within 4Å: Chain B: F.73, V.78, C.82, I.87, K.88, Q.89 No protein-ligand interaction detected (PLIP)

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

SO4.3: 5 residues within 4Å: Chain A: K.23, R.118, E.122, H.123, L.124 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.21, A:R.118, A:L.124 Water bridges: A:K.23, A:K.23, A:E.122, A:K.125 Salt bridges: A:K.23, A:H.123 SO4.9: 5 residues within 4Å: Chain B: K.23, R.118, E.122, H.123, L.124 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.118, B:L.124 Water bridges: B:K.23, B:K.23, B:E.122, B:K.125 Salt bridges: B:K.23, B:H.123

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 8 residues within 4Å: Chain A: N.136, K.137, G.149 Chain B: A.57, G.58, R.59, W.60, P.61 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:W.60, A:N.136, A:K.137 Water bridges: A:E.150 EDO.5: 3 residues within 4Å: Chain A: L.20, E.21, G.115 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.21 Water bridges: A:G.115 EDO.10: 8 residues within 4Å: Chain A: A.57, G.58, R.59, W.60, P.61 Chain B: N.136, K.137, G.149 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.136, B:K.137, A:W.60 Water bridges: B:E.150 EDO.11: 3 residues within 4Å: Chain B: L.20, E.21, G.115 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.21, B:E.21 Water bridges: B:G.115

2 x 65P: (2S)-tert-butoxy[1-(3,4-difluorobenzyl)-6-methyl-4-(5-methyl-3,4-dihydro-2H-chromen-6-yl)-1H-pyrrolo[2,3-b]pyridin-5-yl]acetic acid(Non-covalent)

65P.6: 12 residues within 4Å: Chain A: Q.120, A.121, E.122, H.123, T.126, M.130 Chain B: Q.47, L.54, T.77, A.80, A.81, W.84 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:T.126, B:Q.47, B:A.80, B:W.84 Hydrogen bonds: A:E.122, A:H.123, A:T.126 Salt bridges: A:H.123 Water bridges: B:Q.47 65P.12: 12 residues within 4Å: Chain A: Q.47, L.54, T.77, A.80, A.81, W.84 Chain B: Q.120, A.121, E.122, H.123, T.126, M.130 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:T.126, A:Q.47, A:A.80, A:W.84 Hydrogen bonds: B:E.122, B:H.123, B:T.126, B:T.126 Salt bridges: B:H.123 Water bridges: A:Q.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gupta, K. et al., Structural Basis for Inhibitor-Induced Aggregation of HIV Integrase. PLoS Biol. (2016)

Release Date

2016-12-14

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Integrase

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