SMTL ID : 3djk.1

Wild Type HIV-1 Protease with potent Antiviral inhibitor GRL-0255A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

homo-dimer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 1 residues within 4Å: Chain A: D.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.60 Water bridges: A:R.41 NA.3: 1 residues within 4Å: Chain B: Y.59 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.59

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

CL.2: 3 residues within 4Å: Chain A: G.73, T.74, N.88 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain B: W.6 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain B: G.73, T.74, N.88 Ligand excluded by PLIP

1 x G55: (5R)-1,3-dioxepan-5-yl [(1S,2R)-1-benzyl-2-hydroxy-3-{[(4-methoxyphenyl)sulfonyl](2-methylpropyl)amino}propyl]carbamate(Non-covalent)

G55.6: 24 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, V.32, I.47, G.48, G.49, I.50, P.81, V.82, I.84 Chain B: L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, V.82 18 PLIP interactions: 8 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:A.28, A:V.32, A:P.81, A:V.82, B:L.23, B:V.82 Hydrogen bonds: A:D.29, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30 Water bridges: A:I.50, B:G.48, B:I.50 Salt bridges: A:D.25, B:D.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Flexible cyclic ethers/polyethers as novel P2-ligands for HIV-1 protease inhibitors: design, synthesis, biological evaluation, and protein-ligand X-ray studies. J.Med.Chem. (2008)

Release Date

2008-09-30

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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