SMTL ID : 3oxx.2 (1 other biounit)

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

1 x DR7: (3S,8S,9S,12S)-3,12-BIS(1,1-DIMETHYLETHYL)-8-HYDROXY-4,11-DIOXO-9-(PHENYLMETHYL)-6-[[4-(2-PYRIDINYL)PHENYL]METHYL]-2,5, 6,10,13-PENTAAZATETRADECANEDIOIC ACID DIMETHYL ESTER(Non-covalent)

DR7.1: 26 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, D.29, I.47, G.48, G.49, V.50, P.81, V.82 Chain B: R.8, L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, V.50, P.81, V.82, I.84 25 PLIP interactions: 12 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:L.23, A:A.28, A:I.47, A:V.50, A:P.81, A:V.82, B:L.23, B:A.28, B:I.47, B:V.50, B:V.50, B:P.81, B:V.82 Hydrogen bonds: A:G.27, A:G.27, A:D.29, A:G.48, B:D.25, B:G.27, B:D.29, B:G.48 Water bridges: A:V.50, B:V.50 Salt bridges: A:D.25, B:D.25

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: L.10, V.11, T.12, C.67 Ligands: ACT.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.12 GOL.3: 5 residues within 4Å: Chain A: V.50, G.51 Chain B: I.54, P.79, P.81 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.49, A:G.51 GOL.6: 5 residues within 4Å: Chain A: W.6 Chain B: D.29, R.87, N.88 Ligands: ACT.4 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.29, B:R.87, B:R.87, A:W.6

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

ACT.4: 5 residues within 4Å: Chain A: W.6, K.7, R.8 Chain B: R.87 Ligands: GOL.6 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.87, A:R.8 Hydrogen bonds: A:R.8 ACT.5: 1 residues within 4Å: Ligands: GOL.2 No protein-ligand interaction detected (PLIP) ACT.8: 4 residues within 4Å: Chain B: G.73, T.74, N.88, Q.92 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.74, B:T.74, B:T.74, B:N.88, B:Q.92

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

PO4.7: 3 residues within 4Å: Chain B: E.35, M.36, N.37 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.37, B:N.37

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

EDO.9: 3 residues within 4Å: Chain A: R.87 Chain B: K.7, R.8 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.8, A:R.87, A:R.87 Water bridges: B:R.8

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
C

B
D

HIV-1 PROTEASE

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