IMORPH calculates feasible transition pathways between two different conformations of proteins or nucleic acids. This is a very versatile tool to explore potential pathways even between two relatively distant homolog structures (e.g. sequence number mismatch are allowed). We plan to improve the tool, now is just a proof of concept, but meanwhile you can have access to the latest version either from iMODS online server or from the command line executable included in iMOD toolkit.
López-Blanco JR, Garzón JI, Chacón P. (2011). iMod: multipurpose normal mode analysis in internal coordinates. Bioinformatics. 27 (20): 2843-2850.