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The program chimera will align homologous structures from which you can generate a sequence alignment (based on the structural alignment) http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/matchalign/matchalign.html ~JH On 05.02.2015 14:41, Kgosisejo, Oarabile wrote: > Hi all, > > Does anyone know of a program to use to superpose only selected > protein residues, e.g. enzyme active site residues. I solved my > structure using molecular replacement now I want to compare its active > site to those of homologous structures. I have used the DALI server > before but I had to upload the whole model. > > Thank you for your advise > > BEST REGARDS, > > Oarabile M. Kgosisejo, MSc. Candidate > University of Saskatchewan > > [log in to unmask]