Automated functional classification of experimental and predicted protein structures

BMC Bioinformatics

Table 2 The fold recognition and functional assignment performance of the 3D-Jury system in the LiveBench 7 (LB7), LiveBench 8 (LB8), LiveBench 9 (LB9) and PDB-CAFASP1 (PC1) experiments. Overall, 43.2% (163/377) of all hard targets in these experiments belong to a multi-functional fold family, similar to the frequency (46.4%) in the SCOP database. Approximately one-third (26/86) of the proteins belonging to a multi-functional fold family are assigned to the incorrect functional category even when the folds are predicted correctly.

Data Set	LB7	LB8	LB9	PC1	Total
Number of targets	115	172	188	130	605
Number of hard targets	73	99	111	94	377
Number of hard targets with correctly identified fold	29	40	36	30	135
Number of hard targets within a multi-functional fold family	33	46	42	42	163
Number of hard targets within a multi-functional fold family with correctly identified fold	15	27	24	20	86
Number of hard targets within a multi-functional fold family with correctly identified function	10	19	16	15	60

ISSN: 1471-2105