Figure 4

Side-by-side views versus comparison network view. The location of a set of residues is highlighted at the same time in all views, from left to right, the RIN of the 3D structure of scTIM, the RIN of the model of dTIM as generated by the SQWRL web server, the RIN of chain A of scTIM, the comparison RIN, the sequence alignment of the scTIM and dTIM sequences, and the corresponding 3D structures. The network nodes and residues are colored according to secondary structure (strands in blue and helices in red), except for the comparison RIN, where the nodes are colored according to the fraction of adjacent interaction edges that do not change upon mutation (from white for all to gray for none). Selected nodes are shown in yellow color in the network views and with green boundary or green background in the structure and sequence view, respectively. Such a combination of views allows the user to study the structures and networks side-by-side or all at once in the comparison network.