SMTL ID : 4hdp.1

Crystal Structure of HIV-1 protease mutants I50V complexed with inhibitor GRL-0519

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.22 Å

Oligo State

homo-dimer

Ligands

1 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: 26 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, D.30, G.48, G.49, V.50, V.82, I.84 Chain B: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, I.47, G.48, G.49, V.50, P.81, V.82, I.84 26 PLIP interactions: 12 interactions with chain A, 14 interactions with chain B Hydrophobic interactions: A:L.23, A:V.82, A:I.84, B:L.23, B:A.28, B:V.32, B:V.50, B:P.81, B:P.81, B:V.82, B:I.84 Hydrogen bonds: A:D.25, A:G.27, A:G.27, A:D.29, A:D.30, A:D.30, B:D.29, B:D.30, B:D.30, B:V.50 Water bridges: A:V.50, A:V.50 Salt bridges: A:D.25, B:R.8, B:D.25

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 1 residues within 4Å: Chain A: D.60 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.60, A:D.60 Water bridges: A:R.41 NA.6: 1 residues within 4Å: Chain B: D.60 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.60

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: G.73, T.74, N.88 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: K.7, R.8 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: V.11, T.12, A.67 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain B: W.6 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: G.73, T.74, N.88 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain B: K.7, R.8 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, H. et al., Novel P2 tris-tetrahydrofuran group in antiviral compound 1 (GRL-0519) fills the S2 binding pocket of selected mutants of HIV-1 protease. J.Med.Chem. (2013)

Release Date

2013-08-14

Peptides

HIV-1 Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

HIV-1 Protease

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