SMTL ID : 6bz2.1

Crystal structure of wild-type HIV-1 protease with a novel HIV-1 inhibitor GRL-14213A of 6-5-5-ring fused crown-like tetrahydropyranofuran as the P2-ligand, a cyclopropylaminobenzothiazole as the P2'-ligand and 3,5-difluorophenylmethyl as the P1-ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.67 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

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.4: 1 residues within 4Å: Chain B: W.6 Ligand excluded by PLIP

1 x 7OA: (3S,3aR,5R,7aS,8S)-hexahydro-4H-3,5-methanofuro[2,3-b]pyran-8-yl [(2S,3R)-4-[{[2-(cyclopropylamino)-1,3-benzothiazol-6-yl]sulfonyl}(2-methylpropyl)amino]-1-(3,5-difluorophenyl)-3-hydroxybutan-2-yl]carbamate(Non-covalent)

7OA.3: 25 residues within 4Å: Chain A: R.8, L.23, D.25, G.27, A.28, D.29, D.30, V.32, G.48, G.49, P.81, V.82, I.84 Chain B: L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, V.82, I.84 25 PLIP interactions: 12 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:L.23, A:A.28, A:V.32, A:P.81, A:V.82, A:I.84, B:L.23, B:I.47, B:I.50, B:V.82, B:I.84 Hydrogen bonds: A:R.8, 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 Halogen bonds: A:R.8 Water bridges: B:I.50, B:I.50

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

ACT.5: 5 residues within 4Å: Chain B: P.39, G.40, R.41, Y.59, D.60 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:D.60 Hydrogen bonds: B:D.60 Water bridges: B:R.41, B:R.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Design of Highly Potent, Dual-Acting and Central-Nervous-System-Penetrating HIV-1 Protease Inhibitors with Excellent Potency against Multidrug-Resistant HIV-1 Variants. ChemMedChem (2018)

Release Date

2018-02-28

Peptides

Protease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protease

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