Figure 2.

(A) Orthology coefficients across different protein functional classes. The overall OC refers to comparison of all proteins within the two apicomplexan proteomes. Surface proteins (or extracellular secreted proteins) are defined as those proteins that contain a predicted signal peptide sequence, lack of ER retention signals, and in many instances, contain transmembrane regions, globular cysteine-rich domains, or known surface protein domains. Note that smaller OC values are observed in the Apicomplexa for functional classes such as chromatin dynamics and splicing. Comparison in different eukaryotes of the number of domains per protein (B) and number of types of domains per protein (C). (Cpa) Cryptosporidium parvum; (Pfa) Plasmodium falciparum; (Sc) Saccharomyces cerevisiae; (At) Arabidopsis thaliana; (Hs) Homo sapiens. Comparison of the demography of the most prevalent conserved domains Plasmodium versus Cryptosporidium (D) and Cryptosporidium/Plasmodium versus Yeast (E) by means of scatterplots. The number of proteins containing an occurrence of 190 commonly found regulatory protein domains were determined in each of the proteome using a library of PSI-BLAST profiles of these domains. The number was then plotted as a scatterplot with each organism being compared representing one of the axes. In each graph, the equivalence lines, which have a slope equal to the ratio of the two proteomes being compared, are shown. Points below the equivalence are overrepresented in the organism on the x-axis, whereas points above the equivalence line are overrepresented in the organism on the y-axis.