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