SMTL ID : 2i0a.1

Crystal Structure of KB-19 complexed with wild type HIV-1 protease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 2 residues within 4Å: Chain A: M.36, N.37 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.37 PO4.2: 3 residues within 4Å: Chain A: K.20, E.21, N.83 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.21, A:N.83 Water bridges: A:K.20, A:K.20 PO4.5: 2 residues within 4Å: Chain B: G.16, P.63 3 PLIP interactions: 3 interactions with chain B Water bridges: B:G.16, B:P.63 Salt bridges: B:R.14 PO4.6: 1 residues within 4Å: Chain B: P.1 No protein-ligand interaction detected (PLIP)

1 x MUI: (5S)-3-(4-ACETYLPHENYL)-N-[(1S,2R)-1-BENZYL-2-HYDROXY-3-{ISOBUTYL[(4-METHOXYPHENYL)SULFONYL]AMINO}PROPYL]-2-OXO-1,3-OXAZOLIDINE-5-CARBOXAMIDE(Non-covalent)

MUI.3: 25 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, G.48, G.49, I.50, F.53, V.82 Chain B: 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 Ligands: GOL.4 20 PLIP interactions: 11 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:L.23, B:A.28, B:V.32, B:P.81, B:V.82, A:L.23, A:F.53, A:V.82 Hydrogen bonds: B:D.29, B:D.30, A:G.27, A:G.27, A:G.27, A:D.29 Water bridges: B:R.8, B:I.50, B:I.50, A:D.30 Salt bridges: B:D.25, A:D.25

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: G.49, F.53 Chain B: P.81 Ligands: MUI.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.49 Water bridges: A:I.50, A:G.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ali, A. et al., Discovery of HIV-1 Protease Inhibitors with Picomolar Affinities Incorporating N-Aryl-oxazolidinone-5-carboxamides as Novel P2 Ligands. J.Med.Chem. (2006)

Release Date

2006-12-19

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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