SMTL ID : 3ndt.1 (1 other biounit)

HIV-1 Protease Saquinavir:Ritonavir 1:1 complex structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

homo-dimer

Ligands

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.1: 24 residues within 4Å: Chain A: L.24, D.26, G.28, A.29, D.30, D.31, G.49, G.50, I.51, T.81, P.82, V.83, I.85 Chain B: L.24, D.26, G.28, A.29, D.31, G.49, G.50, I.51, P.82, V.83, I.85 22 PLIP interactions: 14 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:I.51, A:I.51, A:P.82, A:V.83, A:I.85, B:L.24, B:A.29, B:D.31, B:P.82, B:P.82, B:V.83, B:I.85 Hydrogen bonds: A:G.28, A:G.28, A:D.30, A:D.31, A:G.49, A:G.49 Water bridges: A:G.49, A:I.51 Salt bridges: A:D.26, B:D.26

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

CL.2: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain B: K.8 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain B: I.64 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain A: W.7 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain B: D.61, Q.62 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain B: W.43, R.58 Ligand excluded by PLIP

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 7 residues within 4Å: Chain A: K.15, I.16, G.17, G.18, I.64, E.66 Ligands: DMS.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.66 DMS.4: 2 residues within 4Å: Chain A: G.18 Ligands: DMS.3 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 1 residues within 4Å: Chain B: G.69 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olajuyigbe, F.M. et al., Investigation of 2-Fold Disorder of Inhibitors and Relative Potency by Crystallizations of HIV-1 Protease in Ritonavir and Saquinavir Mixtures. Cryst.Growth Des. (2011)

Release Date

2011-07-20

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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