Hi, Pedro!
Sure, you can. It is standard example in the manual.
Specify whatever sequences you want as template, put them into .seq file and you will get a result. One comment: I would modify the automatic alignment when the wild type was as a template. The alignment program will probably align all the residues of the mutant with their counterparts in wild type. I would de-align several residues flanking the gap.
Please refer to the manual for more details.
Regards,
Azat.
Dr P.A. Reche wrote: > > Dear Azat, > > I have made a mutant by removing 7 residues from the original protein > which structure is known. The deletion is in a loop conecting two > b-strands. What I what to do is to get a model for this new mutant using > the original structure as template? Could I improve the model using also > as template the structures of other proteins related to the original one > and which are trying to emulate by making my mutants? > Thanks in advance. > > Sincerely, > > Pedro Reche > > ================================================================================= > Dr. Pedro Antonio Reche Gallardo > Dept. of Biochemistry, U. of Cambridge, > 80 Tennis Court Road, CB2 1GA, Cambridge, England, UK > Phone: +44 (0)1223 333662 > Fax: +44 (0)1223 333661 > par@mole.bio.cam.ac.uk, par32@cus.cam.ac.uk > http://www-ccmr-nmr.bioc.cam.ac.uk/~par
-- - Dr. Azat Badretdinov - The Rockefeller Univ, Box 270 - 1230 York Ave, New York NY 10021, USA - Phone: (212) 327 7206 - Fax: (212) 327 7540 - E-mail: azat@salilab.org - WWW/URL: http://salilab.org/~azat