Dear Han,

you can model oligomeric proteins with modeller by separating the different polypeptide chains of the template and the target in the input alignment with the "/" character:

>P1;template structure... AGFWRTYI/AGFWRTYI/AGFWRTYI/AGFWRTYI* >P1;target sequence... -CFYRTYI/-CFYRTYI/-CFYRTYI/-CFYRTYI*

It is pretty straightforward...

Hope this helps,

Oliver

Han Choe wrote: > Dear Modellers, > > I'm new to the modeller and recently made a single peptide model using > the program successfully. Now I'm interested in building a model of > a potassium ion channel whose structure is known to be a homotetramer. > What is an easy way to build a model of those multmer proteins? > > Cheers, > Han > > > ------------------------------------------------------------------------ > > _______________________________________________ > modeller_usage mailing list > modeller_usage@salilab.org > http://salilab.org/mailman/listinfo/modeller_usage