A portion of the results from a search of a motif describing the "Sigma-54 interaction domain ATP-binding region A signature" (PS00675) motif pattern against (a) all entries in the SwissProt database and (b) the bacterial taxonomy. PS00675 is a motif pattern describing ATP binding signatures of bacteria and has a large number of false positive eukaryotic hits. In (a) we show that by searching the entire SwissProt database no clear distinction can be made between the significance of the ATP binding GO term and the GTP binding GO term. In (b) we show that restricting the taxonomic subset of the motif search to the bacterial taxonomy we reduce the number of false positive eukaryotic hits and show that the ATP binding GO term clearly has a greater significance than the GTP binding GO term.
Bristow et al. BMC Bioinformatics 2011 12:379 doi:10.1186/1471-2105-12-379