SMTL ID : 3dck.1

X-ray structure of D25N chemical analogue of HIV-1 protease complexed with ketomethylene isostere inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

1 x KVI: (2S)-2-{[(2R,5S)-5-{[(2S,3S)-2-{[(2S,3R)-2-(acetylamino)-3-hydroxybutanoyl]amino}-3-methylpentanoyl]amino}-2-butyl-4-oxononanoyl]amino}-N~1~-[(2S)-1-amino-5-carbamimidamido-1-oxopentan-2-yl]pentanediamide(Non-covalent)

KVI.1: 25 residues within 4Å: Chain A: R.8, N.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, P.81, I.84 Chain B: N.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, T.80, P.81, V.82, I.84 29 PLIP interactions: 13 interactions with chain A, 16 interactions with chain B Hydrophobic interactions: A:A.28, A:D.30, A:I.47, A:I.50, A:I.50, B:A.28, B:I.47, B:P.81, B:V.82, B:I.84 Hydrogen bonds: A:R.8, A:R.8, A:G.27, A:D.29, A:G.48, A:G.48, B:N.25, 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 Water bridges: 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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