SMTL ID : 6voe.1

HIV-1 wild type protease with GRL-019-17A, a tricyclic cyclohexane fused tetrahydrofuranofuran (CHf-THF) derivative as the P2 ligand and a aminobenzothiazole(Abt)-based P2'-ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

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

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

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

CL.2: 3 residues within 4Å: Chain A: G.73, T.74, N.88 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: W.6 Ligands: ACT.3 Ligand excluded by PLIP

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

ACT.3: 1 residues within 4Å: Ligands: CL.5 No protein-ligand interaction detected (PLIP) ACT.6: 5 residues within 4Å: Chain B: P.39, G.40, R.41, Y.59, D.60 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:D.60 Hydrogen bonds: B:D.60 Water bridges: B:R.41

1 x T2R: (1S,3aR,5S,6R,7aS)-octahydro-1,6-epoxy-2-benzofuran-5-yl {(2S,3R)-3-hydroxy-4-[(2-methylpropyl)({2-[(propan-2-yl)amino]-1,3-benzoxazol-6-yl}sulfonyl)amino]-1-phenylbutan-2-yl}carbamate(Non-covalent)

T2R.4: 27 residues within 4Å: Chain A: 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: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, I.47, G.48, G.49, I.50, V.82, I.84 24 PLIP interactions: 11 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:A.28, A:D.29, A:V.32, A:I.47, A:I.50, A:P.81, A:V.82, B:L.23, B:I.47, B:I.47, B:V.82, B:I.84 Hydrogen bonds: A:D.29, A:D.30, A:D.30, B:D.25, B:G.27, B:G.27, B:D.29, B:D.30 Salt bridges: A:D.25, B:D.25 Water bridges: B:I.50, B:I.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Structure-Based Design of Highly Potent HIV-1 Protease Inhibitors Containing New Tricyclic Ring P2-Ligands: Design, Synthesis, Biological, and X-ray Structural Studies. J.Med.Chem. (2020)

Release Date

2020-05-13

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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