Protein Family Sorter¶
The Protein Family Sorter tool enables researchers to examine the distribution of specific protein families, known as FIGfams, across different genomes.
Select Family Type¶
PATRIC genus-specific families(PLfams):¶
The genus-specific protein families are computed using only proteins within a genus and more stringent criteria (MCL inflation = 3.0). This provides higher sequence similarity and better specificity while performing within-genus/species or close strain comparisons.
PATRIC cross-genus families(PGfams):¶
The cross-genera protein families are computed by clustering representative proteins from the genus-specific families with slightly relaxed criteria (MCL inflation = 1.1). This allows cross-genera or distant homologs to cluster together, which is necessary to support cross-genera comparative analysis across all microbial genomes.
FIGfams are sets of isofunctional homologs, i.e. set of rotein sequences that are similar along their full length and believed to implement the same function. FIGfams are derived from a collection of functional subsystems, as well as correspondences between genes in closely related strains.