FunFam protein families improve residue level molecular function prediction

BMC Bioinformatics

Table 1 Average binding residue similarity for FunFams and EC-numbers^a

Group	Number of families	Number of proteins	Average binding residue similarity (Eq. 1)
Same FunFams	1856	7172	36.9 ± 0.6
Same EC numbers	1080	5789	29.9 ± 0.8
Same FunFams, EC-FunFams subset	1103	4143	38.6 ± 0.8
Same EC numbers, EC-FunFams subset	833	4143	34.5 ± 0.9
Same EC, different FunFam	771	2893	9.6 ± 0.4
Same FunFam, different EC	404	2817	27.0 ± 1.0
Same EC, same superfamily	1006	4445	38.0 ± .0.01
Same EC, different superfamily	435	1155	5.22 ± 0.01

^aSame FunFams: proteins within same FunFam; Same EC-numbers: proteins with identical EC number; EC-FunFams subset: same subset used for both similarity calculation with FunFams and within EC classes; Same EC different FunFam: subset of proteins with identical EC number classified into different FunFams; Same FunFam different EC: subset of proteins from same FunFam with different EC numbers; Same EC, same superfamily: proteins with identical EC number grouped into a structural superfamily; Same EC, different superfamily: proteins with identical EC number grouped into different superfamilies; ±: refers to one standard error

ISSN: 1471-2105