Emergence of Protein Fold Families through Rational Design
Figure 3
The Sequence Identity for the Constructed Homologous Structures
Three different protein folds are studied: HPR domain (A,B), ROSSMAN fold (D,E), and SH3 domain (G,H). (A,C,E) The sequence identities of the redesigned proteins using the flexible-backbone design simulation are presented as the function of the backbone-RMSD from the reference protein. (B,D,F) The sequence identity of the core is also plotted against the overall sequence identity. The “twilight zone” of sequence identity (20%–30%) corresponds to regions between horizontal (A,C,E) or vertical (B,D,F) lines.