On 11/10/2014 12:20 AM, aneesh cna wrote: > I am a new comer to modeller. I am trying to model a ~15AA long missing > loop region in a homo-dimer. Both monomer units in the homo-dimer > missing the loop region. Unfortunately, my template is a monomer unit. > How can I model the loop region in both monomer together.?
Modeling the two loops is simple - just select both regions in select_loop_atoms() as shown at http://salilab.org/modeller/9.14/manual/node36.html But 30 residues is really long - you'll need to build a lot of models to hope to reasonably sample conformations.
Actually building the comparative model of a dimer from a monomer template is a different story, but this is already discussed at http://salilab.org/modeller/9.14/manual/node29.html
Ben Webb, Modeller Caretaker