Intrinsically disordered protein domains contain a biased amino acid composition.

<p>The relative proportional change in amino acid frequency within disordered regions was calculated for the entire <i>P</i>. <i>falciparum</i> proteome, with comparison made to all predicted ordered regions within the proteome.</p

Distribution of tandem repeats and non-synonymous SNPs within different subcellular compartments for <i>P</i>. <i>falciparum</i>.

<p><b>(A)</b> Prediction of tandem repeats was performed using T-REKS. Percentage tandem repeats was defined as the percentage of each protein that contains tandem repeat sequences. <b>(B)</b> Percentage SNPs was calculated as the percentage of residues within each protein that contain identified SNPs with a minimum minor allele frequency of 5%. Protein localisation was classified using the ApiLoc resource. A total of 451 proteins were assigned a location.</p

Computational workflow used for analysis of the proteome of <i>Plasmodium</i> spp.

<p>Protein coding sequences were obtained from PlasmoDB, and submitted to predictors of protein disorder, MHC binding, linear B-cell epitopes and tandem repeats. Protein localisation data for <i>P</i>. <i>falciparum</i> was obtained from ApiLoc and non-synonymous single nucleotide polymorphisms (SNPs) were obtained from PlasmoDB. All data were stored in a local PostgreSQL database and queried using custom Python scripts. Statistical analysis and data visualisation were performed using the R statistical computing package.</p

The proportion of predicted linear B-cell epitopes was higher in IDPs for all <i>Plasmodium</i> spp.

<p>Classification of disorder was achieved using DISOPRED3. BepiPred was used for prediction of linear B-cell epitopes. The number of predicted linear B-cell epitopes as a percentage of all residues is shown across a range of BepiPred output thresholds. The corresponding sensitivity/specificity for each output threshold is given at <a href="http://www.cbs.dtu.dk/services/BepiPred/output.php" target="_blank">http://www.cbs.dtu.dk/services/BepiPred/output.php</a>. Thresholds range from -0.2 (sensitivity = 0.75, specificity = 0.5) to 1.3 (sensitivity = 0.13, specificity = 0.96).</p

Prediction of protein disorder for various <i>Plasmodium</i> spp. and within subcellular locations for <i>P</i>. <i>falciparum</i>.

<p><b>A)</b> Distribution of protein disorder within the proteome of each <i>Plasmodium</i> spp. at the level of individual proteins. <b>B)</b> Prediction of protein disorder for <i>P</i>. <i>falciparum</i> proteins according to subcellular localisation. Protein localisation was classified using the ApiLoc resource. A total of 451 proteins were assigned a location. Percentage disorder was calculated as the proportion of residues predicted to be disordered at the level of individual proteins. Prediction of disorder was performed using DISOPRED3.</p

Reduced MHCI and MHCII binding in disordered proteins for <i>P</i>. <i>falciparum</i>.

<p>The proportion of peptides with predicted high affinity to MHCI and MHCII is significantly higher for peptides within an ordered protein domain. Boxplots represent the distribution of MHC-binding peptides across all MHC alleles tested.</p