SMTL ID : 1iiq.1

CRYSTAL STRUCTURE OF HIV-1 PROTEASE COMPLEXED WITH A HYDROXYETHYLAMINE PEPTIDOMIMETIC INHIBITOR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

homo-dimer

Ligands

1 x 0ZR: N-{(2R,3S)-3-[(tert-butoxycarbonyl)amino]-2-hydroxy-4-phenylbutyl}-L-phenylalanyl-L-glutaminyl-L-phenylalaninamide(Non-covalent)

0ZR.1: 28 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, F.53, P.81, V.82, I.84 Chain B: R.8, L.23, D.25, G.27, A.28, D.30, I.47, G.48, G.49, I.50, P.81, V.82, I.84 Ligands: GOL.3, GOL.6 25 PLIP interactions: 17 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:A.28, A:F.53, A:F.53, A:P.81, A:V.82, A:I.84, B:L.23, B:A.28, B:I.47, B:P.81, B:V.82, B:I.84 Hydrogen bonds: A:G.27, A:D.29, A:D.29, A:D.29, A:D.30, A:D.30, A:D.30, A:G.48, A:G.48, B:D.25, B:G.27 Water bridges: A:I.50, A:I.50

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: Q.18, M.36, S.37 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.18, A:Q.18, A:S.37, A:S.37 GOL.3: 4 residues within 4Å: Chain A: D.29, D.30, K.45 Ligands: 0ZR.1 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.29, A:K.45, A:K.45 Water bridges: A:D.29, A:D.30, B:R.8 GOL.4: 4 residues within 4Å: Chain A: W.6 Chain B: R.87, N.88, T.91 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.87 GOL.5: 6 residues within 4Å: Chain B: W.42, K.55, R.57, V.77, G.78, P.79 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.57 Water bridges: B:V.56 GOL.6: 6 residues within 4Å: Chain A: R.8 Chain B: D.29, D.30, I.47, G.48 Ligands: 0ZR.1 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.48, B:G.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dohnalek, J. et al., Hydroxyethylamine isostere of an HIV-1 protease inhibitor prefers its amine to the hydroxy group in binding to catalytic aspartates. A synchrotron study of HIV-1 protease in complex with a peptidomimetic inhibitor. J.Med.Chem. (2002)

Release Date

2002-04-12

Peptides

PROTEASE RETROPEPSIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEASE RETROPEPSIN

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