Re: [modeller_usage] A small query regarding modelling

On 9/8/12 9:59 AM, Ashish Runthala wrote: > I have a small query. For a considered well reliable template, is it > possible that i can also use the side chain information exactly the > same way from the template, i.e. MODELLER uses the complete backbone > and side-chain information for the aligned residues from the > considered template, and accordingly the MODELLER then predicts the > left over residues through the earlier considered reliable > scaffolds? Please guide me the same way.

You can simply select only the "left over" residues for refinement: http://salilab.org/modeller/9.11/manual/node23.html

Ben Webb, Modeller Caretaker