Science Advances

The PDF file includes:

• Fig. S1. General evaluation of the XL-MS approach.
• Fig. S2. Mapping of cross-linking data onto high-resolution structure of several protein complexes.
• Fig. S3. Characterization of XL-based protein interaction network from hippocampus synaptosomes.
• Fig. S4. Characterization of XL-based protein interaction network from hippocampus microsomes.
• Fig. S5. Characterization of XL-based protein interaction network from cerebellum synaptosomes.
• Fig. S6. Characterization of XL-based protein interaction network from cerebellum microsomes.
• Fig. S7. Extended and detailed XL-based protein interaction network (extended Fig. 3A).
• Fig. S8. XL-based protein interaction network analysis.
• Fig. S9. Protein interaction interfaces and peptide array analysis (extended Fig. 4).
• Fig. S10. Evaluation of XL-MS approach on biologically independent replicates for hippocampal synaptosome (extended Fig. 6).
• Fig. S11. Complete XL-based protein interaction network from all seven cross-linking MS experiments.

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Other Supplementary Material for this manuscript includes the following:

• Table S1A (Microsoft Excel format). Complete list of cross-links identified in the two datasets.
• Table S1B (Microsoft Excel format). SynGO enrichment analysis of proteins identified in dataset 1.
• Table S1C (Microsoft Excel format). Cross-linked protein list.
• Table S2 (Microsoft Excel format). Clustering and GO enrichment analysis of the proteins in the XL-based protein interaction network.
• Table S3 (Microsoft Excel format). Human protein mapping and overlap of cross-linked lysine positions with protein interaction interfaces.
• Table S4 (Microsoft Excel format). Sequences and signal intensities for the peptides included in the two independent replicates of peptide arrays (fig. S9B).
• Movie S1 (.mp4 format). Dynamic simulation of the three conformational states of Camk2.