How to inherit statistically validated annotation within BAR+ protein clusters

BMC Bioinformatics

Table 1 Annotating the CAFA set with BAR+

	Cov	MFO OR BPO	MFO	BPO	*CCO*	ALL-O	Pfam	ALL-O OR Pfam	PDB°
Eukaryotes	90%	20,532	17,389	17,131	16,430	22,733	24,038	26,378	8,054
[32,143]^	70%	1,448
Prokaryotes	90%	9,660	8,915	8,202	4,723	9,843	10,772	11,088	5,924
[12,295]^	70%	224
Unknown	90%	36	32	32	10	36	50	50	4
[57]^	70%	4
Total		30,228	26,336	25,365	21,163	32,612	34,860	37,516	13,982
[44,495]^									2,047*

Cov: Coverage, the ratio of the length of the intersection of the aligned regions on the two sequences and the overall length of the alignment (namely the sum of the lengths of the two sequences minus the intersection length). For both Cov values Sequence Identity (SI) is ≥ 40%. MFO: Molecular Function Ontology; BPO: Biological Process Ontology; CCO: Cellular Component Ontology. ALL-O: number of sequences with predicted MFO OR BPO OR CCO. Pfam terms. ALL-O OR Pfam: the union of ALL-O and Pfam. °PDB: sequences that inherit a structural template from a cluster HMM within BAR+ [20]. ^ CAFA/BAR+ set sequences from Eukaryotes, Prokaryotes, and Unknown organisms. *Sequences with a corresponding PDB structure.

ISSN: 1471-2105