SMTL ID : 2q54.1

Crystal structure of KB73 bound to HIV-1 protease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 2 residues within 4Å: Chain A: R.8 Ligands: MU1.5 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.8, A:R.8 Salt bridges: A:R.8 PO4.2: 4 residues within 4Å: Chain A: R.14, I.15, G.16, G.17 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.16, A:G.17 Water bridges: A:R.14, A:P.63 Salt bridges: A:R.14

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

ACT.3: 3 residues within 4Å: Chain A: G.68, H.69, K.70 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.68, A:K.70 ACT.4: 3 residues within 4Å: Chain A: P.1, C.67, H.69 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.1 Salt bridges: A:H.69

1 x MU1: N~2~-ACETYL-N-[(1S,3S,4S)-4-({[(5S)-3-(3-ACETYLPHENYL)-2-OXO-1,3-OXAZOLIDIN-5-YL]CARBONYL}AMINO)-1-BENZYL-3-HYDROXY-5-PHENYLPENTYL]-L-VALINAMIDE(Non-covalent)

MU1.5: 25 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, G.48, G.49, I.50, P.81, V.82, I.84 Chain B: R.8, D.25, G.27, A.28, D.29, G.48, G.49, I.50, P.81, I.84 Ligands: PO4.1 20 PLIP interactions: 12 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:L.23, A:A.28, A:V.32, A:P.81, A:P.81, A:V.82, A:I.84, B:I.50, B:P.81, B:I.84 Hydrogen bonds: A:G.27, A:D.29, A:G.48, B:D.25, B:G.27, B:D.29 Water bridges: A:R.8, A:I.50, B:D.30, B:I.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reddy, G.S. et al., Design and Synthesis of HIV-1 Protease Inhibitors Incorporating Oxazolidinones as P2/P2' Ligands in Pseudosymmetric Dipeptide Isosteres. J.Med.Chem. (2007)

Release Date

2007-09-04

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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