SMTL ID : 3pwr.1

HIV-1 Protease Mutant L76V complexed with Saquinavir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 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: 26 residues within 4Å: Chain A: L.23, 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, V.32, I.47, G.48, G.49, I.50, P.81, I.84 Ligands: GOL.8 22 PLIP interactions: 13 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:P.81, A:V.82, A:I.84, B:L.23, B:V.32, B:I.47, B:I.50, B:P.81, 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 Water bridges: A:I.50, A:I.50, B:G.27, B:D.29 Salt bridges: A:D.25, B:D.25

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

CL.2: 4 residues within 4Å: Chain A: G.73, T.74, N.88 Ligands: GOL.5 Ligand excluded by PLIP

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: T.4, L.5, W.6 Chain B: T.91, G.94, A.95 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.5 GOL.4: 6 residues within 4Å: Chain A: P.39, G.40, R.41, Y.59, D.60, Q.61 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:P.39, A:D.60 Water bridges: A:R.41, A:R.41, A:Q.58, A:D.60 GOL.5: 6 residues within 4Å: Chain A: D.29, D.30, T.74, N.88 Ligands: CL.2, GOL.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.30, A:D.30, A:T.74 GOL.6: 7 residues within 4Å: Chain A: D.29, R.87, N.88, T.91 Chain B: L.5, W.6 Ligands: GOL.5 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.29, A:R.87, A:R.87, B:W.6 GOL.7: 6 residues within 4Å: Chain A: I.15, G.16, P.39, Q.61, I.62, I.63 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.16, A:Q.61, A:I.63 Water bridges: A:K.14, A:G.17 GOL.8: 4 residues within 4Å: Chain A: D.29, I.47, G.48 Ligands: ROC.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.48 GOL.9: 6 residues within 4Å: Chain B: I.15, G.16, L.38, P.39, I.62, I.63 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.16, B:I.63 Water bridges: B:Q.61 GOL.10: 4 residues within 4Å: Chain A: W.6 Chain B: D.29, R.87, N.88 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:W.6, B:R.87, B:R.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Louis, J.M. et al., The L76V Drug Resistance Mutation Decreases the Dimer Stability and Rate of Autoprocessing of HIV-1 Protease by Reducing Internal Hydrophobic Contacts. Biochemistry (2011)

Release Date

2011-04-20

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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