CLIPS-1D: analysis of multiple sequence alignments to deduce for residue-positions a role in catalysis, ligand-binding, or protein structure

Table 1 Classification performance of SVMs and FRpred on functionally and structurally important residue-positions

The line "2C-SVM" gives MCC-values resulting from a classification of catalytic sites (CAT_sites) with SVM_CAT, of ligand-binding sites (LIG_sites) with SVM_LIG, and of structurally important sites (STRUC_sites) with SVM_STRUC. The line "CLIPS-1D" shows the performance of the MC-SVM. For FRpred, performance resulting from the analysis of HSSP-MSAs is given. For CAT_sites and LIG_sites, MCC-values are listed resulting from FRcons-cat or FRcons-lig scores of at least 8 or 9, respectively. For STRUC_sites, the same percentage of false positives resulted from FRcons-cat and FRcons-lig predictions.

ISSN: 1471-2105