Table 2.

Higher threshold of SVM scores for defining 'unknown' category of similarity relations between domains

SCOP class	SCOP fold pairs	SVM score at 95% percentile
α/β	Rossmann-like folds vs. TIM barrel	0.7
α + β	Ferredoxin-like vs. IF3-like	0.6
All α	Four-helical up-and-down bundle vs. globin-like	0.8
All β	OB-fold vs. SH3-like barrel	0.3
Average		0.6

The average value in the table is the determined higher boundary for the distributions of scores between folds that share local similarity but are not global structure templates for each other (false positives).