SMTL ID : 3gi6.1

Crystal structure of protease inhibitor, AD78 in complex with wild type HIV-1 protease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-dimer

Ligands

1 x D78: (5S)-N-[(1S,2R)-2-Hydroxy-3-[[(4-methoxyphenyl)sulfonyl](2-methylpropyl)amino]-1-(phenylmethyl)propyl]-2-oxo-3-[3-(trif luoromethyl)phenyl]-5-oxazolidinecarboxamide(Non-covalent)

D78.1: 24 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 18 PLIP interactions: 9 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:L.23, A:V.82, B:L.23, B:A.28, B:V.32, B:V.82 Hydrogen bonds: A:D.25, A:G.27, A:G.27, A:D.29, B:D.29, B:D.30 Water bridges: A:D.30, B:I.50, B:I.50 Salt bridges: A:D.25, B:D.25 Halogen bonds: A:G.49

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

PO4.2: 2 residues within 4Å: Chain A: M.36, N.37 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.37 Water bridges: A:N.37 PO4.3: 1 residues within 4Å: Chain B: P.1 No protein-ligand interaction detected (PLIP) PO4.4: 1 residues within 4Å: Chain B: G.16 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.16 Water bridges: B:P.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nalam, M.N. et al., Evaluating the substrate-envelope hypothesis: structural analysis of novel HIV-1 protease inhibitors designed to be robust against drug resistance. J.Virol. (2010)

Release Date

2010-03-09

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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