COVID-19 Research Paper Volume 12, Issue 12 pp 11263—11276

De novo design of protein peptides to block association of the SARS-CoV-2 spike protein with human ACE2

Figure 3. Sequence logo analysis of 992 unique peptide binders designed by EvoEF2 (A) and favorable interactions introduced in the top binder (B and C). In figure (A), the interface residues on the wild-type peptide are marked with ‘:’ if hydrogen bonds or ion bridges exist, or ‘.’ otherwise; non-interface residues are marked with ‘^’. In figures (B) and (C), the residues on the wild-type and designed structures are colored in cyan and magenta, respectively; interface and non-interface residues on the peptide are shown in ball-and-stick and stick models, respectively, while residues on SARS-CoV-2 RBD are shown in lines. Hydrogen bonds and/or ion bridges are shown using green-dashed lines.