SMTL ID : 4he9.1

Crystal Structure of HIV-1 protease mutants I54M complexed with inhibitor GRL-0519

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.06 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(Covalent)

G52.1: 25 residues within 4Å: Chain A: R.8, D.25, G.27, A.28, D.29, 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 20 PLIP interactions: 11 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:L.23, B:V.82, B:I.84, A:A.28, A:D.30, A:V.32, A:P.81, A:V.82 Hydrogen bonds: B:D.25, B:G.27, B:G.27, B:D.29, B:D.30, A:D.29, A:D.30 Water bridges: B:I.50, B:I.50 Salt bridges: B:D.25, A:R.8, A:D.25

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

NA.2: 1 residues within 4Å: Chain A: D.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.60, A:D.60

5 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: 8 residues within 4Å: Chain A: T.26, G.27, A.28, D.29, R.87 Chain B: R.8, P.9, L.23 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain B: W.6 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: G.73, T.74, N.88 Ligand excluded by PLIP CL.7: 8 residues within 4Å: Chain A: R.8, P.9, L.23 Chain B: T.26, G.27, A.28, D.29, R.87 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

2013-08-21

Peptides

HIV-1 protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HIV-1 protease

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