Highlighting sections for change in Refinement puzzles
|Opened on:||Thursday, June 28, 2012 - 15:09|
|Last modified:||Thursday, June 28, 2012 - 16:58|
After looking at the two native folds that were just released for CASP refinement puzzles, it appears that the portions needing attention did not need a great deal of movement away from the best predicted fold. Delivering refinement puzzles to us with sections stretched out straight forces us to make radical changes from the prediction in those areas, which in turn tends to push other portions of the protein away from the prediction. Perhaps the portions needing change could be delivered to us in the shape predicted, only slightly displaced (translated and/or rotated a bit), with short cutpoints at either end. This would ensure that we do not just duplicate the given prediction, but would be a better start than making those sections into a de novo challenge. If slight movement would bias us too much toward a single solution, you could rotate the cut portions 180 degrees, forcing us to choose an angle to reattach them, while still giving us the information of the shape they are predicted to have.