Figure 3.
Protein Phosphorylation in the Aggregate Interactome
(A) Aggregate protein-phosphorylation details inferred from SY5Y-APPSw proteomics. Three categories of aggregate proteins were observed: those identified via peptides that are always phosphorylated (red), those with peptides having both phosphorylated and unmodified forms (purple), and those whose peptides are always unmodified (blue). Hub connectors are shown in green.
(B) Venn diagram depicting the composition of aggregate proteins, based on peptide phosphorylation as in (A).
(C) Cross-linked contacts of phosphorylated CAND1 (arrow, cullin-associated and neddylation-dissociated protein 1), showing contactome linkages to other hub proteins, including DYHC1 and mega-hub SRRM2. Of 19 connected hubs, 12 are phosphorylation-state-specific (red or blue).
(D) Cross-linked contacts of phosphorylated DYHC1 (arrow, dynein heavy chain 1), showing that its contactome linkages with other hub proteins are mostly phosphorylation-specific (12 red/always, 17 blue/never, 11 purple/mixed).
(E) Cross-linked contacts of phosphorylated DYN2 (arrow, dynamin 2), showing its contactome linkages with 7 always-phosphorylated/red hub proteins, 4 never-phosphorylated/blue hubs and 2 mixed/purple hubs.
(F) Cross-linked contacts of phosphorylated SYNE2 (arrow, spectrin repeat containing nuclear envelope protein 2) showing complex, mega-hub interactions with other hubs and mega-hubs.