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2020 ; 255
(ä): 117831
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Unravelling lead antiviral phytochemicals for the inhibition of SARS-CoV-2 M(pro)
enzyme through in silico approach
#MMPMID32450166
Gurung AB
; Ali MA
; Lee J
; Farah MA
; Al-Anazi KM
Life Sci
2020[Aug]; 255
(ä): 117831
PMID32450166
show ga
A new SARS coronavirus (SARS-CoV-2) belonging to the genus Betacoronavirus has
caused a pandemic known as COVID-19. Among coronaviruses, the main protease
(M(pro)) is an essential drug target which, along with papain-like proteases
catalyzes the processing of polyproteins translated from viral RNA and recognizes
specific cleavage sites. There are no human proteases with similar cleavage
specificity and therefore, inhibitors are highly likely to be nontoxic.
Therefore, targeting the SARS-CoV-2 M(pro) enzyme with small molecules can block
viral replication. The present study is aimed at the identification of promising
lead molecules for SARS-CoV-2 M(pro) enzyme through virtual screening of
antiviral compounds from plants. The binding affinity of selected small drug-like
molecules to SARS-CoV-2 M(pro), SARS-CoV M(pro) and MERS-CoV M(pro) were studied
using molecular docking. Bonducellpin D was identified as the best lead molecule
which shows higher binding affinity (-9.28 kcal/mol) as compared to the control
(-8.24 kcal/mol). The molecular binding was stabilized through four hydrogen
bonds with Glu166 and Thr190 as well as hydrophobic interactions via eight
residues. The SARS-CoV-2 M(pro) shows identities of 96.08% and 50.65% to that of
SARS-CoV M(pro) and MERS-CoV M(pro) respectively at the sequence level. At the
structural level, the root mean square deviation (RMSD) between SARS-CoV-2 M(pro)
and SARS-CoV M(pro) was found to be 0.517 Å and 0.817 Å between SARS-CoV-2 M(pro)
and MERS-CoV M(pro). Bonducellpin D exhibited broad-spectrum inhibition potential
against SARS-CoV M(pro) and MERS-CoV M(pro) and therefore is a promising drug
candidate, which needs further validations through in vitro and in vivo studies.