Protean 3D’s structure alignment workflow lets you identify homologous regions between two or more structures, independent of sequence similarity. Unlike simple superposition methods, structure alignments do not require prior knowledge of equivalent residues between structures. This workflow is facilitated by your choice of the TM-Align or jFATCAT rigid-body alignment algorithms to compare the shapes and 3D conformations of multiple structures. The structure alignment workflow is also useful for comparing NovaFold and NovaFold AI predicted models to template structures from the Protein Data Bank.
To initiate a structure alignment, choose Structure > Align Structures > Structure Alignment. This opens a wizard consisting of three screens. See the following topics for information on making selections in each of the screens.
To try this workflow for yourself, see the tutorial Try it! – Align multiple structures using jFATCAT.
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