Predicting phenotypic traits of prokaryotes from protein domain frequencies

BMC Bioinformatics

Table 5 Discriminative domain families for phenotype category "Motility"

rank	weight	# groups	Pfam-ID	Pfam description
1	0.008	18	PF00015	Methyl-accepting chemotaxis protein (MCP) signaling domain
2	0.007	20	PF00672	HAMP domain
3	0.007	14	PF00460	Flagella basal body rod protein
4	0.006	12	PF08345	Flagellar M-ring protein C-terminal
5	0.006	15	PF06429	Domain of unknown function (DUF1078)
6	0.006	14	PF00700	Bacterial flagellin C-terminus
7	0.006	16	PF01312	FlhB HrpN YscU SpaS Family
8	0.006	11	PF02120	Flagellar hook-length control protein
9	0.006	14	PF02049	Flagellar hook-basal body complex protein FliE
10	0.006	14	PF00669	Bacterial flagellin N-terminus

List of the 10 most (positive) discriminative domain families associated with the RLSC model for the phenotype category "Motility" (see also section "Methods"). The first column indicates the rank, the second column shows the discriminative model weight. The third column denotes the phylogenetic width of a particular domain family. The fourth and fifth column correspond to the Pfam ID and family description associated with a particular domain family. The table with the 50 most positively and negatively discriminative domain families can be found in additional file 2.

ISSN: 1471-2105