Figure 2.

Sequential parsing by SEED. (A) Examples of excised and in situ fragments derived from sequentially contiguous regions of structure. (B) Fragments are centered on each residue i and extended to increasing lengths up to the full length of the protein. The sequence is circularized to account for fragments containing both N- and C-terminal residues. The m values are calculated for both excised and in situ fragments, normalized to the number of residues in the fragments (m/F), and the median (horizontal lines) is calculated with respect to all fragment lengths with a common central residue, i. The median cooperativity ratio is CR = (m_excised/F)/(m_in situ/F). To see this figure in color, go online.