SMTL ID : 3s56.1

HIV-1 protease triple mutants V32I, I47V, V82I with antiviral drug saquinavir

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

2 x ROC: (2S)-N-[(2S,3R)-4-[(2S,3S,4aS,8aS)-3-(tert-butylcarbamoyl)-3,4,4a,5,6,7,8,8a-octahydro-1H-isoquinolin-2-yl]-3-hydroxy-1 -phenyl-butan-2-yl]-2-(quinolin-2-ylcarbonylamino)butanediamide(Non-covalent)

ROC.1: 26 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, I.32, V.47, G.48, G.49, I.50, T.80, P.81, I.82 Chain B: R.8, L.23, D.25, G.27, D.30, G.48, G.49, I.50, P.81, I.82, I.84 Ligands: ROC.2, ACT.3 20 PLIP interactions: 9 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:L.23, B:D.30, B:I.50, B:P.81, B:I.82, B:I.84, A:P.81, A:I.82 Water bridges: B:G.48, B:I.50, A:G.48, A:I.50 Salt bridges: B:D.25, A:D.25 Hydrogen bonds: A:G.27, A:G.27, A:D.29, A:D.30, A:D.30, A:G.48 ROC.2: 8 residues within 4Å: Chain B: R.8, L.10, E.21, L.23, E.34, P.81, I.82 Ligands: ROC.1 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.10, B:E.21, B:L.23, B:P.81, B:I.82, B:I.82, B:I.82 Hydrogen bonds: B:E.34 Water bridges: B:N.83 Salt bridges: B:E.34 pi-Cation interactions: B:R.8

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: R.8 Chain B: G.27, A.28, D.29 Ligands: ROC.1 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.8 Hydrogen bonds: B:D.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tie, Y. et al., Critical differences in HIV-1 and HIV-2 protease specificity for clinical inhibitors. Protein Sci. (2012)

Release Date

2012-03-21

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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