Skip to main content

Table 1 PSORTb v.2.0 predicted localization sites for 405 proteins reported in ten subproteome studies.

From: Assessing the precision of high-throughput computational and laboratory approaches for the genome-wide identification of protein subcellular localization in bacteria

Laboratory Data    PSORTb v.2.0 Predicted Localizationa)   
Organism Fractiona) Total C C/CM C/P CM CM/P P P/OM OM OM/EC EC UN Agreementb) Coveragec)
E. coli [64] C 23 19 - - - - 1 - - - - 3 95.0 87.0
Synechocystis [15] CM 63 13 2 - 5 1 6 - 5 1 - 30 24.2 52.4
Synechocystis [46] P 57 2 - 1 - - 8 - 3 - - 43 64.3 24.6
K. pneumoniae [16] OM 3 - - - - - - - 3 - - - 100.0 100.0
S. typhimurium [16] OM 11 2 - - - - - - 6 1 - 2 77.8 81.8
E. coli [17] OM 39 3 - - - 1 3 - 22 1 1 8 74.2 79.5
P. gingivalis [18] OM 6 - - - - - - - 2 - 1 3 66.7 50.0
P. aeruginosa [13] OM 33 4 - - 1 - - 1 22 2 1 2 80.6 93.9
P. aeruginosa [13] EC 150 33 - - 5 1 33 - 9   6 63 6.9 58.0
H. pylori [19] EC 20 3 - - - - 2 - 4 1 1 9 18.2 55.0
  1. a) C = cytoplasmic, CM = cytoplasmic membrane, P = periplasmic, OM = outer membrane, EC = extracellular, and UN = unknown.
  2. b) Percentage of agreement is defined by , where: A represents the number of proteins of the fraction X predicted by PSORTb to be resident at X and X/Y localization sites.
  3. B represents the total number of proteins of the fraction X predicted as not unknown by PSORTb.
  4. c) Percentage of coverage is defined by , where: B represents the total number of proteins of the fraction X predicted as not unknown by PSORTb.
  5. T represents the total number of proteins identified in the fraction X.