Reply To: Peptide design

[Anonymous]

Score12 is the standard that most of us use for design (the Kuhlman lab, anyway). Check out the Top7 paper to see what it’s made of.
Science. 2003 Nov 21;302(5649):1364-8.
Design of a novel globular protein fold with atomic-level accuracy.
Kuhlman B, Dantas G, Ireton GC, Varani G, Stoddard BL, Baker D.

The community has had an internal focus on improving the scorefunction recently, but nobody’s published their results yet. I know the -correct flag is supposed to make things better, but I don’t know how or if it works with pyrosetta (or if it’s been tested with design as opposed to abinitio).