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. 2007 Dec 7;3(12):e239. doi: 10.1371/journal.pcbi.0030239

Figure 1. Similarity in Modular Composition and Relative Interface Between Binding Sites.

Figure 1

The Kringle domain (Pfam ID: PF00051; PDB ID: 1bht) has been chosen as an illustrative example of modular separation of binding sites. The two binding sites A (blue) and B (red) of this domain are represented in spacefill, with their interface residues depicted in balls and sticks. The interface between binding sites A (ten residues) and B (eight residues) involves four and three residues from each binding site, respectively. The relative interface between these binding sites is C(A,B) = 0.39 (see Materials and Methods). The domain has been decomposed into five modules represented by the colored surfaces: 1 (green), 2 (yellow), 3 (olive), 4 (purple), and 5 (cyan). The modular composition of binding sites A and B are (2,8,0,0,0) and (0,2,3,3,0), respectively. The similarity in modular composition of these binding sites is M(A,B) = 0.20.