Investigating the structural impact of Omicron RBD mutation on antibody escape and receptor management

Abstract

The SARS-CoV-2 Variant B.1.1.5291 evolved rapidly in late November 2021 from the existing mutants sparking fear worldwide owing to its infamous immune escape from a varied class of neutralising antibodies. To assess the structural behaviour of Omicron-Receptor Binding Domain (RBD) upon interacting with cross-reactive CR3022 antibody, we investigated the computational approach of structural engagement in B.1.1529 RBD and wild-type RBD with CR3022 antibody. The current study investigates the interacting interface between the RBDs and CR3022 to decipher the key residues accompanying the potential mutational landscape of SARS-CoV-2 variants. We conducted in-silico docking followed by molecular dynamics simulation analysis to examine the dynamic behaviour of protein-protein interactions. Furthermore, the study unleashed possible interactions post energy decomposition analysis via MM-GBSA. Conclusively, the mutational landscape of RBD eases in designing and discovering the effective neutralisation accompanied by development of a universal vaccine.

Communicated by Ramaswamy H. Sarma

Keywords:

• SARS-CoV-2
• mutational landscape
• receptor management
• immune escape
• neutralising antibodies
• free-energy landscapes

Disclosure statement

No potential conflict of interest was reported by the author(s).

Additional information

Funding

Science and Engineering Research Board under Department of Science and Technology (DST), India.