Judy Barnett-Norris wrote:
I have been reading about the restraints and have a question. I am modeling a GPCR using rhodopsin's crystal structure as my template. I want to model one area of a helix using some backbone dihedral values different from rhodopsin (10 actual dihedrals). Do I use the special.restraints script and list my specific dihedrals or do I need to do something similar to the cis proline example where I would unpick and then add each restraint?? If you could just point me in the direction....
To add additional restraints, you use the special_restaints routine. See, for example http://salilab.org/modeller/manual/node30.html
This cis proline example in the FAQ is just a special case of using the special_restraints routine.
Ben Webb, Modeller Caretaker -- modeller-care@salilab.org http://www.salilab.org/modeller/ Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage