I am using Modeller to model a structure in which there is a portion
- not present in the template - that I want to force to be an
alpha-helix. If I introduce the secondray structure restraints in the
entire corresponding region of sequence, I obtain a straightened
helix. In the sequence, however, there is a Proline in correspondence
of which I want to induce a little distortion of the helix. If I
force the secondary structure only before and after the proline, by
excluding it, I obtain some very strange angles of an helix with
respect to the other, that is a too pronounced bending. Is there in
Modeller a way to induce a "controlled" distortion (that in my case
corresponds to control the angle between the CO and NH groups of the
proline!)?