Residue IE Score (max +500)
Monitors that all PHE, TYR, and TRP residues are scoring well.
Core Existence (max +1000)
Ensures that at least 25% of residues are buried in the protein core.
SS Design (max +400)
Penalizes all CYS residues. Penalizes GLY, ALA, SER, THR in helices. Penalizes GLY, ALA in sheets.
Residue Count (max +100)
Penalizes extra residues inserted beyond 110, at a cost of 20 points per residue. Players may use up to 115 residues in total.
I like the connection at the two ends of the protein, but the two helices that should have been fixed can move,
Thanks for the quick feedback, NinjaGreg! This puzzle has been closed early, and reposted as Puzzle 1738b.
The high score is recorded even though there are cuts in the protein.