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Abstract
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Recently the prevalence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has become
a pervasive threat to generic health. The SARS-CoV-2 spike (S) glycoprotein plays a fundamental role
in binds and fusion to the angiotensin-converting enzyme 2 (ACE2). The multi-epitope peptide vaccines would be able to elicit both long-lasting humoral and cellular immune responses, resulting the
eliminating SARS-CoV-2 infections as asymptomatic patients are in large numbers. Recently, the omicron variant of the SARS-CoV-2 became a variant of concern that contained just 15-point mutations in
the receptor-binding domain of the spike protein. In order to eliminate new evidence on coronavirus
variants of concern detected through epidemic intelligence, the conserved epitopes of the receptorbinding domain (RBD) and spike cleavage site is the most probable target for vaccine development to
inducing binds and fusion inhibitors neutralizing antibodies respectively. In this study, we utilized bioinformatics tools for identifying and analyzing the spike (S) glycoprotein sequence, e.g. the prediction
of the potential linear B-cell epitopes, B-cell multi-epitope design, secondary and tertiary structures,
physicochemical properties, solubility, antigenicity, allergenicity, the molecular docking and molecular
dynamics simulation for the promising vaccine candidate against all variant of concern of SARS-CoV-2.
Among the epitopes of the RBD region are surface-exposed epitopes SVYAWNRKRISNCV and
ATRFASVYAWNRKR as the conserved sequences in all variants of concern can be a good candidate to
induce an immune response
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