Re: [modeller_usage] help required in preparing .ali file

On 7/14/12 11:06 PM, Sumra Wajid Abbasi 30-FBAS/MSBI/F09 wrote: > In my case there are to starting residue positions first residues start > from 2nd position and continuous upto 39th position than from 40 to 45th > positions residues are missing, thn from 46th onwards residues are present > > now while preparing ali file i am confused how to mention the 2 starting > positions of residues?

If there are missing residues in your template, you need do nothing special about the gap between 40 and 45. Modeller only cares about the starting residue and the ending residue.

Ben Webb, Modeller Caretaker