The coronavirus disease 2019 (COVID-19) pandemic, caused by severe acute respiratory
syndrome coronavirus 2 (SARS-CoV-2), has led to more than 5 million deaths worldwide to
date. Due to the limited therapeutic options so far available, target-based virtual
screening with LC/MS support was applied to identify the novel and high-content
compounds
1
–
4
with inhibitory effects on SARS-CoV-2 in
Vero E6 cells from the plant
Dryopteris wallichiana
. These compounds
were also evaluated against SARS-CoV-2 in Calu-3 cells and showed unambiguous inhibitory
activity. The inhibition assay of targets showed that compounds
3
and
4
mainly inhibited SARS-CoV-2 3CLpro, with effective
K
d
values. Through docking and molecular dynamics
modeling, the binding site is described, providing a comprehensive understanding of
3CLpro and interactions for
3
, including hydrogen bonds, hydrophobic bonds,
and the spatial occupation of the B ring. Compounds
3
and
4
represent new, potential lead compounds for the development of anti-SARS-CoV-2 drugs.
This study has led to the development of a target-based virtual screening method for
exploring the potency of natural products and for identifying natural bioactive
compounds for possible COVID-19 treatment.