SMTL ID : 7to5.1

HIV-1 wild type protease with GRL-05816A, with C-4 substituted cyclohexane-fused bis-tetrahydrofuran (Chf-THF) derivatives as P2-ligand [diastereomer 1]

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.13 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 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

3 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: 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

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 2 residues within 4Å: Chain A: W.6, K.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.7 Water bridges: A:T.4, A:K.7

1 x G8R: (1R,3aS,4S,6S,7aR)-octahydro-1,6-epoxy-2-benzofuran-4-yl [(2S,3R)-4-{[2-(cyclopropylamino)-1,3-benzothiazole-6-sulfonyl](2-methylpropyl)amino}-3-hydroxy-1-phenylbutan-2-yl]carbamate(Non-covalent)

G8R.4: 24 residues within 4Å: Chain A: L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, V.82 Chain B: D.25, G.27, A.28, D.29, D.30, V.32, K.45, I.47, G.48, G.49, P.81, V.82, I.84 22 PLIP interactions: 11 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:A.28, B:V.32, B:P.81, B:V.82, A:L.23, A:I.47, A:V.82 Hydrogen bonds: B:D.29, B:D.30, B:D.30, B:K.45, A:G.27, A:G.27, A:D.29, A:D.30, A:D.30 Water bridges: B:I.50, B:I.50, A:I.50, A:I.50 Salt bridges: B:D.25, A:D.25

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain B: T.12, E.65, A.67, G.68 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.65, B:G.68 Water bridges: B:T.12, B:T.12, B:T.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Design, Synthesis and X-Ray Structural Studies of Potent HIV-1 Protease Inhibitors Containing C-4 Substituted Tricyclic Hexahydro-Furofuran Derivatives as P2 Ligands. Chemmedchem (2022)

Release Date

2022-03-02

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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