Dear Bostjan, There is Chimera for almost anything you can think of. Search for "Structure-Based Sequence Alignment" on this page: http://www.cgl.ucsf.edu/chimera/features.html
Petr On Dec 8, 2011, at 6:39 AM, Bostjan Kobe wrote: > Consurf will do this for you. > > Bostjan > > --- > Bostjan Kobe > NHMRC Research Fellow > Professor of Structural Biology > School of Chemistry and Molecular Biosciences > > and Institute for Molecular Bioscience (Division of Chemistry and > Structural Biology) and Centre for Infectious Disease Research > > > Cooper Road > University of Queensland > Brisbane, Queensland 4072 > Australia > Phone: +61 7 3365 2132 > Fax: +61 7 3365 4699 > E-mail: [email protected] > URL: http://www.scmb.uq.edu.au/staff/bostjan-kobe > Office: Building 76 Room 329 > Notice: If you receive this e-mail by mistake, please notify me, and do > not make any use of its contents. I do not waive any privilege, > confidentiality or copyright associated with it. Unless stated otherwise, > this e-mail represents only the views of the Sender and not the views of > The University of Queensland. > > > > > > On 8/12/11 3:26 PM, "Yuri Pompeu" <[email protected]> wrote: > >> I once saw a figure showing the protein as surface, but instead of having >> it coloured by atom type >> or potential, it was shown by percent conservation in the family. >> Something like red highly conserved, all the way to white, not conserved >> at all... >> Now, I assume the figure was done by uploading aligned sequnces of >> several members of a family, and the colouring >> the generated surface accordingly. >> Does anyone know a way to do this more elegantly than what I tried doing? >> ps. I quit colouring them manually after I remebered my protein was 407 >> aa long...
