There are very few
small-molecule antivirals for SARS-CoV-2
that
are either currently approved (or emergency authorized) in the US
or globally, including remdesivir, molnupiravir, and paxlovid. The
increasing number of SARS-CoV-2 variants that have appeared since
the outbreak began over three years ago raises the need for continual
development of updated vaccines and orally available antivirals in
order to fully protect or treat the population. The viral main protease
(Mpro) and the papain-like protease (PLpro)
are key for viral replication; therefore, they represent valuable
targets for antiviral therapy. We herein describe an in vitro screen
performed using the 2560 compounds from the Microsource Spectrum library
against Mpro and PLpro in an attempt to identify
additional small-molecule hits that could be repurposed for SARS-CoV-2.
We subsequently identified 2 hits for Mpro and 8 hits for
PLpro. One of these hits was the quaternary ammonium compound
cetylpyridinium chloride with dual activity (IC50 = 2.72
± 0.09 μM for PLpro and IC50 = 7.25
± 0.15 μM for Mpro). A second inhibitor of PLpro was the selective estrogen receptor modulator raloxifene
(IC50 = 3.28 ± 0.29 μM for PLpro and
IC50 = 42.8 ± 6.7 μM for Mpro). We
additionally tested several kinase inhibitors and identified olmutinib
(IC50 = 0.54 ± 0.04 μM), bosutinib (IC50 = 4.23 ± 0.28 μM), crizotinib (IC50 = 3.81
± 0.04 μM), and dacominitinib (IC50 = IC50 3.33 ± 0.06 μM) as PLpro inhibitors
for the first time. In some cases, these molecules have also been
tested by others for antiviral activity for this virus, or we have
used Calu-3 cells infected with SARS-CoV-2. The results suggest that
approved drugs can be identified with promising activity against these
proteases, and in several cases we or others have validated their
antiviral activity. The additional identification of known kinase
inhibitors as molecules targeting PLpro may provide new
repurposing opportunities or starting points for chemical optimization.