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. 2022 May 19;10:e13380. doi: 10.7717/peerj.13380

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© 2022 Abbasi et al.

This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

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(A) Schematic representation of SARS-CoV-2 Surface glycoprotein with different colours denoting different domains along with location of shortlisted BCL, HTL and CTL epitope; NTD: N-terminal domain, RBD: Receptor binding domain, RBM: Receptor binding motif, SD1/2 subdomain 1 and 2, FP: Fusion peptide, HR1: heptad repeat 1, CH: central helix, CD; connector domain, HR2: Heptad repeat 2, TM: transmembrane domain, CT: cytoplasmic tail, S1 and S2 cleavage site are protease cleavage site. DLCFTNVY: BCL epitope, KIADYNYKL: CTL epitope, VKNKCVNFN: HTL epitope. (B) Multiple sequence alignment of different SARS-CoV-2 variants done by CLC Main workbench, showing conserved epitopes (i) BCL epitope, (ii) CTL epitope and (iii) HTL epitope. (C) Phylogenetic tree of 19 SARS-CoV-2 variants. Pango lineage number has been added in the description of variants in the figure.