Combining specificity determining and conserved residues improves functional site prediction

BMC Bioinformatics

Table 4 Assessment of SDPsite versions, diverse dataset.

Family	SDPsite (λ = 0.5 AND λ = 1)	SDPsite (λ = 0.5 OR λ = 1)	SDPsite (no SDPs)
PF00108	-	-	+
PF00128	-	-	+
PF00135	-	-	-
PF00215	+	+	-
PF00278	-	+	-
PF00293	+	+	+
PF00348	+	+	+
PF00351	-	+	+
PF00579	+	+	+
PF00583	-	-*	-
PF00590	+	+	-
PF00755	+	+	+
PF00871	+	+	+
PF00896	-	+	+
PF00962	-	+	+
PF01048	-	+	-
PF01112	-	+	-
PF01135	+	+	-
PF01202	-	+	+
PF01234	-	+	+
PF01467	-*	-	-*
PF01712	+	+	+
PF02274	+	+	+
PF03061	-*	-*	-
PF03171	+	+	-
PF03414	-	+	+
Accuracy	0.42 (11/26)	0.78 (20/26)	0.58 (15/26)

'+': successful prediction (average distance to ligand <10 Å, p-value in Mann-Whitney test against all amino acids of the protein < 0.01), '-*': moderately successful prediction (average distance to ligand <10 Å, p-value in Mann-Whitney test against all amino acids of the protein < 0.1), '-' otherwise.

ISSN: 1471-2105