Fig. 7.

An example of Pfam domain alignment possible with the Caretta website (found at www.bioinformatics.nl/caretta). The user selects a Pfam domain and is given the list of PDB IDs associated with that domain. The website allows selection of up to 40 PDB IDs to align. Once alignment is complete, three panels are displayed, showing the multiple sequence alignment, the corresponding superposition of the structures, and the alignment of structural features (with a drop-down menu to choose between different features). These three panels are interconnected, allowing the user to select proteins and residue positions across all three views at once.