SMTL ID : 3d1x.1

Crystal structure of HIV-1 mutant I54M and inhibitor saquinavir

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.05 Å

Oligo State

homo-dimer

Ligands

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 3 residues within 4Å: Chain A: G.73, T.74, N.88 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain B: W.6 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain B: G.73, T.74, N.88 Ligand excluded by PLIP

1 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.2: 25 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, T.80, P.81, V.82, I.84 Chain B: R.8, L.23, D.25, G.27, I.47, G.48, G.49, I.50, P.81, V.82, I.84 Ligands: GOL.3 26 PLIP interactions: 14 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:I.50, A:P.81, A:V.82, A:I.84, B:L.23, B:I.47, B:I.50, B:P.81, B:P.81, B:V.82, B:V.82, B:I.84 Hydrogen bonds: A:G.27, A:G.27, A:G.27, A:D.29, A:D.30, A:G.48, A:G.48, A:G.48 Water bridges: A:I.50, B:G.27, B:D.29, B:I.50 Salt bridges: A:D.25, B:D.25

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: D.29, D.30, I.47, G.48 Ligands: ROC.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.48 Water bridges: A:M.46, B:R.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, F. et al., Effect of flap mutations on structure of HIV-1 protease and inhibition by saquinavir and darunavir. J.Mol.Biol. (2008)

Release Date

2008-06-03

Peptides

HIV-1 Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HIV-1 Protease

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