Re: [modeller_usage] restraining secondary structure

On 1/24/11 1:00 AM, bharat lal wrote: > I am using the following script for restraining the beta strands in my > protein (after searching the mailing archives):-

Your script will not work because you are using the automodel class rather than your custom 'mymodel' class. Replace a = automodel(env, with a = mymodel(env,

This also looks like a very old Modeller script (perhaps for Modeller 8). The way secondary structure restraints are defined has changed. See http://salilab.org/modeller/9v8/manual/node27.html for the correct syntax for adding a secondary structure restraint.

Ben Webb, Modeller Caretaker