2-(1H-Benzoimidazol-2-yl)-6-ethoxy-phenol

In silico anti-SARS-CoV-2 activities of five-membered heterocycle-substituted benzimidazoles

The manuscript deals with cost-effective synthesis, structural characterization and in silico SARS-CoV-2 screening activity of 5-membered heterocycle-substituted benzimidazole derivatives, 1-((1H-pyrrol-2-yl)methyl)-2-(1H-pyrrol-2-yl)-1H-benzo[d]imidazole (L1), 2-(furan-2-yl)-1-(furan-2-ylmethyl)-1H-benzo[d]imidazole (L2), 2-(thiophen-2-yl)-1-(thiophen-2-ylmethyl)-1H-benzo[d]imidazole (L3). The benzimidazole compounds were synthesized through a green-synthetic approach by coupling of 5-membered heterocyclic-carboxaldehyde and o-phenylenediamine in water under an aerobic condition. The compounds were characterized by various spectroscopic methods and X-ray structural analysis. The suitable single-crystals of the methyl derivative of L3 were grown as L3' which crystallized in a monoclinic system and the thiophene groups co-existed in a nearly a perpendicular orientation. Further, in silico anti-SARS-CoV-2 proficiency of the synthetic derivatives is evaluated against main protease (M^pro) and non-structural proteins (nsp2 and nsp7) of SARS-CoV-2. Molecular docking and molecular dynamics analysis of the ligands (L1-L3) against M^pro and nsp2 and nsp7 for 50 ns reveal that L3 turns out to be the superlative antiviral candidate against M^pro, nsp2 and nsp7 of SARS-CoV-2 as evident from the binding score and stability of the ligand-docked complexes with considerable binding energy changes.

Synthesis and crystal structures of N-H, N-phenyl and N-benzyl-2-(4-hexyl-oxyphen-yl)benzimidazoles

The title compounds, 2-(4-hexyl-oxyphen-yl)-1H-benzimidazole (C19H22N2O; 1), 2-(4-hexyl-oxyphen-yl)-1-phenyl-1H-benzimidazole (C25H26N2O; 2) and 1-benzyl-2-(4-hexyl-oxyphen-yl)-1H-benzimidazole (C26H28N2O; 3) were synthesized and their structures were determined by single-crystal X-ray analysis. The N-substituent at the imidazole moiety slightly affects the inter-planar angle between the 4-hexyl-oxyphenyl ring and the benzimidazole system. The unsubstituted benzimidazole (1) forms inter-molecular N-H⋯N bonds while in the crystal structures of 2 and 3, the mol-ecules are assembled only through π-π and C-H⋯π inter-actions.

4-Chloro-2-(6-nitro-1H-benzimidazol-2-yl)phenol N,N-dimethyl-form-amide solvate

In the title compound, C₁₃H₈ClN₃O₃·C₃H₇NO, the benzimidazole and benzene rings make a dihedral angle of 0.63 (11)°. An intra­molecular O—H⋯N hydrogen bond generates an S(6) ring motif. The solvent mol­ecule is hydrogen-bonded to the benzimidazole mol­ecule by inter­molecular N—H⋯O and C—H⋯O hydrogen bonds, generating an R¹₂(7) ring motif. In the crystal, the mol­ecules are arranged into parallel layers perpendicular to the c axis and stabilized by weak π–π inter­actions [centroid–centroid distances in the range 3.4036 (18)–3.5878 (16) Å].

2-Meth-oxy-6-(6-methyl-1H-benzimid-azol-2-yl)phenol

In the title mol-ecule, C(15)H(14)N(2)O(2), the substituted benzene ring forms a dihedral angle of 4.15 (1)° with the benzimidazole ring system. An intra-molecular O-H⋯N hydrogen bond generates an S(6) ring motif. In the solid state, mol-ecules are linked into chains along the [001] via inter-molecular bifurcated N-H⋯(O,O) hydrogen bonds, which generate R(1) (2)(5) ring motifs. The crystal packing is also consolidated by C-H⋯π inter-actions, and π-π stacking inter-actions between the imidazole and substituted benzene rings [centroid-centroid distance = 3.5746 (13) Å]. The methyl group attached to the benzimidazole ring system is disordered over two positions with occupancies of 0.587 (6) and 0.413 (6), suggesting 180° rotational disorder for the benzimidazole group.