Table I

Parameter optimization

The balanced sum of errors (FP + FN when FP = FN = minimum) is tabulated for different values of the weights on the total packing (W) and the difference in packing (w) for secondary structure interactions. Each FP is a pair of proteins from different HOMSTRAD families that score above the cutoff whereas an FN is a family pair that lies below the cutoff. The cutoff is the line that divides the 10,000 data points such that FP = FN = minimum. The value 155 in bold is the minimum.

W0.00.10.20.30.40.5
w
20.0178170162165165166
10.0172158 155 158163166
5.0164160158160164167
2.0166161159164166172
1.0166160160166173174
0.50170166166171177181
0.20176170176180191197
0.10177178186192194198
0.05182194193200200203