Just wondering how you guys went about "increasing tolerance for buried polar residues." Does this have something to with the "hiding" subscore for polar residues?
There's a score term (represented by the 'Hiding' subscore) in these puzzles that inflicts a penalty when a polar residue is in close proximity to many other residues (i.e. in the core of the protein).
This relative weight of this score term is reduced in each iteration of the puzzle.
Thanks for the response, bkoep :D