Interactive structural visualizations of escape mutation maps

Below are links to interactive visualizations of the effects of single mutations to the SARS-CoV-2 spike receptor-binding domain (RBD) on recognition by three affinity-matured IGHV3-53 neutralizing antibodies.

These antibodies, CAB-A17, CAB-A49, and CAB-C19, were first described in Sheward et al..

These visualizations are built using dms-view. These experiments are described in this pre-print, and raw data are available here.

Sites of escape are shown for each antibody, and are mapped to the ACE2-bound RBD structure (PDB 6M0J).

dms-view renderings for each antibody’s escape mapped to the ACE2-bound RBD structure:

• ACE2-bound RBD

dms-view renderings for CAB-A17’s escape mapped to the Fab-bound Omicron BA.1 RBD structure. This structure was solved by Martin Hällberg and colleagues and is reported in the preprint linked above:

• CAB-A17-bound Omicron BA.1 RBD