SMTL ID : 4dqf.1

Crystal Structure of (G16A/L38A) HIV-1 Protease in Complex with DRV

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

1 x 017: (3R,3AS,6AR)-HEXAHYDROFURO[2,3-B]FURAN-3-YL(1S,2R)-3-[[(4-AMINOPHENYL)SULFONYL](ISOBUTYL)AMINO]-1-BENZYL-2-HYDROXYPROPYLCARBAMATE(Non-covalent)

017.1: 25 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, 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, I.84 23 PLIP interactions: 10 interactions with chain B, 13 interactions with chain A Hydrophobic interactions: B:L.23, B:V.82, A:L.23, A:A.28, A:V.32, A:P.81, A:V.82, A:I.84 Hydrogen bonds: B:D.25, B:G.27, B:G.27, B:D.29, B:D.30, B:D.30, A:D.29, A:D.30, A:D.30 Water bridges: B:I.50, A:D.29, A:D.30, A:I.50 Salt bridges: B:D.25, A:D.25

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain B: G.68, H.69, K.70 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.68, B:K.70 Water bridges: B:H.69 Salt bridges: B:H.69 SO4.3: 2 residues within 4Å: Chain B: P.1, H.69 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.69

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 3 residues within 4Å: Chain A: W.6 Chain B: T.91, G.94 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain B: K.20, E.21, N.83 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.21, B:N.83, B:N.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mittal, S. et al., Hydrophobic core flexibility modulates enzyme activity in HIV-1 protease. J.Am.Chem.Soc. (2012)

Release Date

2012-03-07

Peptides

Aspartyl protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aspartyl protease