Proteome-Wide Discovery of Evolutionary Conserved Sequences in Disordered Regions

Alex N. Nguyen Ba, Brian J. Yeh, Dewald van Dyk, Alan R. Davidson, Brenda J. Andrews, Eric L. Weiss, Alan M. Moses*

*To whom correspondence should be addressed. E-mail: alan.moses{at}utoronto.ca

This PDF file includes:

• Fig. S1. Schematic of the phylo-HMM approach.
• Fig. S2. Regions with no conserved segments are not detected by the phylo-HMM approach.
• Fig. S3. Newly identified KEN box in Spt21 and Cbk1 interaction motif in Ssd1 are conserved in further yeast species.
• Fig. S4. Simulation of protein evolution.
• Fig. S5. Performance of the phylo-HMM approach on literature-curated short linear motifs.
• Fig. S6. Binding of FxFP peptides to Cbk1.
• Fig. S7. Phylogenetic tree of species used for this study.
• Tables S1 to S4 legends
• Table S5. Annotation of top 20 clusters from different distance metrics of predicted short conserved sequences.
  

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Other Supplementary Material for this manuscript includes the following:

• Table S1 (Microsoft Excel format). Predictions on the yeast proteome by the phylo-HMM approach.
• Table S2 (Microsoft Excel format). Literature-curated characterized short linear motifs.
• Table S3 (Microsoft Excel format). Enrichment analysis of motifs matching known consensus sequences.
• Table S4 (Microsoft Excel format). Clusters of similar short conserved sequences.

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© 2012 American Association for the Advancement of Science