SMTL ID : 2hb3.1

Wild-type HIV-1 Protease in complex with potent inhibitor GRL06579

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-dimer

Ligands

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

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

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

NA.2: 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.5: 1 residues within 4Å: Chain B: D.60 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.60, B:D.60

1 x GRL: (3AS,5R,6AR)-HEXAHYDRO-2H-CYCLOPENTA[B]FURAN-5-YL (2S,3S)-3-HYDROXY-4-(4-(HYDROXYMETHYL)-N-ISOBUTYLPHENYLSULFONAMIDO)-1-PHENYLBUTAN-2-YLCARBAMATE(Non-covalent)

GRL.6: 23 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, G.48, G.49, I.50, V.82 19 PLIP interactions: 11 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:A.28, A:V.32, A:I.47, A:P.81, A:V.82, A:I.84, B:L.23, B:V.82 Hydrogen bonds: A:D.29, A:D.30, B:G.27, B:G.27, B:G.27, B:D.29 Water bridges: A:D.30, A:I.50, B:I.50 Salt bridges: A:D.25, B:D.25

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain B: W.42, K.55, R.57 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.57 Water bridges: B:V.56, B:V.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Structure-Based Design of Novel HIV-1 Protease Inhibitors To Combat Drug Resistance. J.Med.Chem. (2006)

Release Date

2006-08-29

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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