I am trying to model a heterotrimeric protein with Modeller. How do I designate the different chains? My template molecule contains three chains, as does the model I'm trying to make. When I use Modeller I get a single chain which distorts my overall tertiary structure. Do I have to model each chain individually or am I missing something? Jeff Jeffrey P. Jones, Associate Professor of Chemistry Room 477 Fulmer Hall, Washington State University Pullman WA 99164-4630, jpj@wsu.edu http://cyp.chem.wsu.edu/~jpj/jones_group.html (509) 335-5983, Fax (509) 335-8867
Hi, In the alignment the sequences of each monomer must be separated by a chain break character "/" (slash). That should solve the problem. Best Wishes, Roberto -- Roberto Sanchez | phone : (212) 327 7206 The Rockefeller University | fax : (212) 327 7540 1230 York Avenue, Box 38 | e-mail: sancher@rockvax.rockefeller.edu New York, NY 10021-6399 | http://salilab.org "Jeffrey P. Jones" wrote: > > I am trying to model a heterotrimeric protein with Modeller. How do I > designate the different chains? My template molecule contains three chains, > as does the model I'm trying to make. When I use Modeller I get a single > chain which distorts my overall tertiary structure. Do I have to model each > chain individually or am I missing something? > > Jeff > > Jeffrey P. Jones, Associate Professor of Chemistry > Room 477 Fulmer Hall, Washington State University > Pullman WA 99164-4630, jpj@wsu.edu > http://cyp.chem.wsu.edu/~jpj/jones_group.html > (509) 335-5983, Fax (509) 335-8867
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Jeffrey P. Jones -
Roberto Sanchez