Molecular definition of SARS-CoV-2 RBD mutations: receptor affinity
versus neutralization of receptor interaction
Abstract
Background: Several new variants of SARS-CoV-2 have emerged since fall
2020 which have multiple mutations in the receptor binding domain (RBD)
of the spike protein. It is unclear which mutations affect receptor
affinity versus immune recognition. Methods: We produced RBD with single
mutations (E484K, K417N or N501Y) or with all three mutations combined
and tested their binding to ACE2 by biolayer interferometry (BLI). The
ability of convalescent sera to recognize RBDs and block their
interaction with ACE2 was tested as well. Results: We demonstrated that
single mutation N501Y increased binding affinity to ACE2 but did not
significantly affect its recognition by convalescent sera. In contrast,
single mutation E484K had almost no impact on the binding kinetics, but
essentially abolished recognition of RBD by convalescent sera.
Interestingly, combining mutations E484K, K417N and N501Y resulted in a
RBD with both features: enhanced receptor binding and abolished immune
recognition. Conclusion: Our data demonstrate that single mutations
either affect receptor affinity or immune recognition while triple
mutant RBDs combine both features.