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.