Interactive structural visualizations of complete mapping of mutations to the RBD that reduce binding by polyclonal sera from individuals vaccinated against SARS-CoV-2 with mRNA-1273

Below are links to interactive visualizations of the effects of single mutations to the SARS-CoV-2 spike receptor-binding domain (RBD) on binding by sera from mRNA-1273-vaccinated individuals.

These visualizations are built using dms-view. These experiments are described in this paper, and raw data are available here. The samples from vaccinated individuals were first described in Jackson, et al. (2020).

The escape maps from comparable samples from SARS-CoV-2 convalescent individuals were first described in Greaney et al. (2021a) and Greaney et al. (2021b). These convalescent plasma samples were first described in Crawford et al. (2020) and Robbiani, et al. (2020).

Sites where mutations reduce binding are shown for each serum, and are mapped to the ACE2-bound RBD structure (PDB 6M0J).

dms-view renderings for each vaccine serum’s or convalescent plasma’s escape mapped to the ACE2-bound RBD structure:

• vaccine sera
• convalescent plasmas

You can see an interactive version (with more colors!) of the multidimensional scaling plot shown in the manuscript’s Figure 4B here. This version of the plot shows the relationships between the escape maps of different classes of monoclonal antibodies, convalescent plasmas, and vaccine sera, subsetted on time point and vaccine dose.