For more info on the Layer Design filter, please see: http://fold.it/portal/node/993855
The filter will not allow me to place hydrophobes anywhere on a helix. I want to place hydrophobes in the area between two helices (the "inside"), while keeping the area to the outside of both hydrophilic. But no matter where I try to mutate a helix, it never lets me choose a hydrophobic, because all parts of a helix are apparently "outside".
I don't want to mutate my protein before I place it in some type of organized structure(s).
Am I doing something wrong, here? I am hearing cries like mine throughout chat. I really think the devs ned to re-consider how this filter works, or even if it we need it.
How about scoring "proper" sidechains better, but allowing us to mutate to whatever we think best?