SMTL ID : 4j54.1

Crystal Structure of Multidrug Resistant HIV-1 Protease Clinical isolate PR20 with the potent antiviral inhibitor GRL-0519A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

2 x G52: (3R,3aS,3bR,6aS,7aS)-octahydrodifuro[2,3-b:3',2'-d]furan-3-yl [(1S,2R)-1-benzyl-2-hydroxy-3-{[(4-methoxyphenyl)sulfonyl](2-methylpropyl)amino}propyl]carbamate(Non-covalent)

G52.1: 22 residues within 4Å: Chain A: D.25, G.27, A.28, D.29, N.30, I.32, G.48, G.49, I.50, V.82 Chain B: D.25, G.27, A.28, D.29, N.30, I.32, V.47, G.48, G.49, I.50, P.81, V.82 19 PLIP interactions: 9 interactions with chain B, 10 interactions with chain A Hydrophobic interactions: B:A.28, B:I.32, B:V.47, B:I.50, B:P.81, B:V.82, A:V.82 Hydrogen bonds: B:D.29, B:N.30, A:D.25, A:G.27, A:G.27, A:D.29, A:N.30, A:N.30 Salt bridges: B:D.25, A:D.25 Water bridges: A:I.50, A:I.50 G52.17: 3 residues within 4Å: Chain B: P.44, K.55, V.56 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.44

22 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 3 residues within 4Å: Chain A: D.35, I.36, N.83 Ligand excluded by PLIP IOD.3: 1 residues within 4Å: Chain A: W.6 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: R.57 Ligands: ACT.16 Ligand excluded by PLIP IOD.5: 3 residues within 4Å: Chain A: V.11, T.12 Ligands: IOD.6 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: A.67 Ligands: IOD.5 Ligand excluded by PLIP IOD.7: 2 residues within 4Å: Chain A: E.21, N.83 Ligand excluded by PLIP IOD.8: 4 residues within 4Å: Chain A: F.10, E.21, V.82, N.83 Ligand excluded by PLIP IOD.9: 3 residues within 4Å: Chain A: T.12, K.14, E.65 Ligand excluded by PLIP IOD.10: 2 residues within 4Å: Chain A: I.3, T.4 Ligand excluded by PLIP IOD.11: 1 residues within 4Å: Chain A: V.82 Ligand excluded by PLIP IOD.12: 4 residues within 4Å: Chain A: K.14, G.16, G.17, P.63 Ligand excluded by PLIP IOD.13: 1 residues within 4Å: Chain A: P.81 Ligand excluded by PLIP IOD.14: 2 residues within 4Å: Chain A: P.44, K.45 Ligand excluded by PLIP IOD.15: 1 residues within 4Å: Chain A: Q.61 Ligand excluded by PLIP IOD.18: 3 residues within 4Å: Chain B: D.35, G.78, P.79 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain B: E.21, N.83 Ligand excluded by PLIP IOD.20: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.22: 5 residues within 4Å: Chain B: T.12, V.13, K.14, E.65, A.67 Ligand excluded by PLIP IOD.23: 1 residues within 4Å: Chain B: T.12 Ligand excluded by PLIP IOD.24: 1 residues within 4Å: Chain B: M.46 Ligand excluded by PLIP IOD.25: 2 residues within 4Å: Chain B: P.39, G.40 Ligand excluded by PLIP

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

ACT.16: 3 residues within 4Å: Chain A: W.42, R.57 Ligands: IOD.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.42 Salt bridges: A:R.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Agniswamy, J. et al., Extreme Multidrug Resistant HIV-1 Protease with 20 Mutations Is Resistant to Novel Protease Inhibitors with P1'-Pyrrolidinone or P2-Tris-tetrahydrofuran. J.Med.Chem. (2013)

Release Date

2013-05-15

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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