SMTL ID : 2nph.1

Crystal structure of HIV1 protease in situ product complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

1 x ALA- GLU- THR- PHE: tetrapeptide fragment(Non-covalent)

ALA-GLU-THR-PHE.1: 17 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, D.30, K.45, I.47, G.48, I.84 Chain B: R.8, L.23, D.25, I.50, P.81, V.82, I.84 Ligands: TYR-VAL-ASP-GLY-ALA.2 19 PLIP interactions: 13 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:A.28, A:D.29, A:I.84, B:L.23, B:I.50, B:P.81, B:P.81, B:V.82 Hydrogen bonds: A:G.27, A:G.27, A:D.29, A:D.29, A:D.29, A:K.45, A:K.45, A:G.48, A:G.48 Water bridges: A:I.50 Salt bridges: B:R.8

1 x TYR- VAL- ASP- GLY- ALA: pentapeptide fragment(Non-covalent)

TYR-VAL-ASP-GLY-ALA.2: 21 residues within 4Å: Chain A: R.8, L.23, D.25, I.50, P.81, V.82, I.84 Chain B: D.25, G.27, A.28, D.29, D.30, V.32, M.46, I.47, G.48, G.49, F.53, I.84 Ligands: ALA-GLU-THR-PHE.1, ALA-GLU-THR-PHE.1 17 PLIP interactions: 10 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:A.28, B:V.32, B:I.84, A:L.23, A:I.50, A:P.81, A:I.84 Hydrogen bonds: B:G.27, B:D.29, B:D.29, B:G.48, B:G.48, A:R.8, A:D.25 Water bridges: B:M.46 Salt bridges: B:K.45, A:R.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Das, A. et al., Crystal structure of HIV-1 protease in situ product complex and observation of a low-barrier hydrogen bond between catalytic aspartates. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-12-19

Peptides

PROTEASE RETROPEPSIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEASE RETROPEPSIN