Fig. 8.

Recognition of CC dimers by nanobodies. (A) The amounts of solvent-buried nanobody surface for different structures show that non-CDR surfaces make a significant contribution in the stabilization of nanobody-CC complexes. (B) Number of hotspot interactions formed by CDR and non-CDR residues shows that CDR loops anchor the nanobodies to the CCs by forming the majority of hotspots, while non-CDR residues facilitate binding by less strong interactions. (C) Positions of CC interactions on the helical wheel. The radius of the bright orange circle corresponds to the cumulative number of nanobody interactions with this position for all complexes. Inter dark orange circle corresponds to the cumulative number of nanobody hotspot interactions (strong interactions). The results are combined for parallel and antiparallel CCs by considering the positions d’/a’, g’/e’, or b’/c’ as structurally equivalent.