SMTL ID : 3oxw.1 (1 other biounit)

Crystal Structure of HIV-1 I50V, A71V Protease in Complex with the Protease Inhibitor Darunavir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 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: 23 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.30, V.32, I.47, G.48, G.49, V.50, P.81, I.84 Chain B: L.23, D.25, G.27, A.28, D.29, D.30, V.32, G.48, G.49, V.50, V.82 22 PLIP interactions: 11 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:L.23, A:A.28, A:V.32, A:V.50, A:P.81, A:I.84, B:L.23, B:V.82 Hydrogen bonds: A:D.29, A:D.30, A:D.30, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30, B:D.30 Salt bridges: A:D.25, B:D.25 Water bridges: B:V.50, B:V.50

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 4 residues within 4Å: Chain A: R.14, I.15, G.16, G.17 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.17 Water bridges: A:R.14, A:R.14, A:G.16 Salt bridges: A:R.14 PO4.7: 2 residues within 4Å: Chain B: M.36, N.37 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.37, B:N.37, B:N.37

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 2 residues within 4Å: Chain A: G.52, F.53 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.53, A:F.53 ACT.4: 4 residues within 4Å: Chain A: N.88, T.91, Q.92 Chain B: W.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.91, A:Q.92 ACT.8: 3 residues within 4Å: Chain B: K.7, R.8, L.10 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.10 Hydrogen bonds: B:R.8 Water bridges: A:R.87

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

EDO.5: 5 residues within 4Å: Chain A: L.10, E.21, E.34, V.82, N.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.34, A:N.83, A:N.83 EDO.9: 4 residues within 4Å: Chain A: W.6 Chain B: D.29, R.87, N.88 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.30, B:R.87, B:N.88

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: I.54, P.79, P.81 Chain B: G.49, V.50, G.51, G.52 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:P.79, B:G.51, B:G.51, B:G.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mittal, S. et al., Structural and thermodynamic basis of amprenavir/darunavir and atazanavir resistance in HIV-1 protease with mutations at residue 50. J.Virol. (2013)

Release Date

2011-09-28

Peptides

HIV-1 Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

HIV-1 Protease

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