SMTL ID : 3dcr.1

X-ray structure of HIV-1 protease and hydrated form of ketomethylene isostere inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

1 x KVS: N~2~-[(2R,5S)-5-({(2S,3S)-2-[(N-acetyl-L-threonyl)amino]-3-methylpent-4-enoyl}amino)-2-butyl-4,4-dihydroxynonanoyl]-L-glutaminyl-L-argininamide(Non-covalent)

KVS.1: 25 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, I.84 Chain B: L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, P.81, V.82, I.84 31 PLIP interactions: 15 interactions with chain B, 16 interactions with chain A Hydrophobic interactions: B:L.23, B:A.28, B:P.81, B:I.84, A:L.23, A:D.30, A:I.47, A:I.50, A:I.50 Hydrogen bonds: B:G.27, B:D.29, B:D.29, B:D.29, B:D.30, B:D.30, B:D.30, B:G.48, B:G.48, B:I.50, A:R.8, A:R.8, A:G.27, A:G.27, A:D.29, A:G.48, A:G.48 Salt bridges: B:D.29 Water bridges: A:R.8, A:G.48, A:G.48, A:I.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torbeev, V.Y. et al., Crystal structure of chemically synthesized HIV-1 protease and a ketomethylene isostere inhibitor based on the p2/NC cleavage site. Bioorg.Med.Chem.Lett. (2008)

Release Date

2008-08-19

Peptides

Chemical analogue HIV-1 protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Chemical analogue HIV-1 protease

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