Appendix 1—figure 9. Prediction examples. ; Per-residue PScores used to calculate the final full sequence PScore are shown for a selection of human proteins, with residues colored from purple (PScore ≤ −2) to white (PScore = 0) to green (PScore ≥4.0). Black triangles denote residues annotated by PhosphoSitePlus as targets of PTMs, blue triangles denote modification sites with known regulatory significance, and red circles denote modification sites with known disease relevance. Proteins are annotated with the percentage of GO terms (with at least 10 human proteins) and high PScore-enriched GO terms (Panther analysis, PScore ≥4, with O/E > 1) of which the protein is a member, as well as the total number of each for which the annotated protein has the highest PScore in the set. Examples are grouped by (A), involvement in synaptic plasticity and neuronal behavior, showing synaptic functional regulator FMR1, and synaptophysin; (B), intracellular biomaterials and related structural proteins, showing focal adhesion kinase 1, vimentin, and keratin type I cytoskeletal 10; (C), proteins involved in signaling pathways, showing CCR4-NOT transcription complex subunit 3, β-catenin, vitamin D3 receptor, and Smoothened homolog; and (D), proteins involved in extracellular biomaterials, showing fibrinogen alpha chain and dentin sialophosphoprotein. (E) The cystic fibrosis transmembrane conductance regulator is shown as an example of a negative prediction, even though containing a large region of intrinsic disorder (residues ~650–840).

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