Note to users. If you're seeing this message, it means that your browser cannot find this page's style/presentation instructions -- or possibly that you are using a browser that does not support current Web standards. Find out more about why this message is appearing, and what you can do to make your experience of our site the best it can be.


Sci. Signal., 16 February 2010
[DOI: 10.1126/scisignal.2000482]

Supplementary Materials for:

Deciphering Protein Kinase Specificity Through Large-Scale Analysis of Yeast Phosphorylation Site Motifs

Janine Mok, Philip M. Kim, Hugo Y. K. Lam, Stacy Piccirillo, Xiuqiong Zhou, Grace R. Jeschke, Douglas L. Sheridan, Sirlester A. Parker, Ved Desai, Miri Jwa, Elisabetta Cameroni, Hengyao Niu, Matthew Good, Attila Remenyi, Jia-Lin Nianhan Ma, Yi-Jun Sheu, Holly E. Sassi, Richelle Sopko, Clarence S. M. Chan, Claudio De Virgilio, Nancy M. Hollingsworth, Wendell A. Lim, David F. Stern, Bruce Stillman, Brenda J. Andrews, Mark B. Gerstein, Michael Snyder,* Benjamin E. Turk*

*To whom correspondence should be addressed. E-mail: ben.turk{at}yale.edu; mpsnyder{at}stanford.edu.

This PDF file includes:

  • Materials and Methods
  • Fig. S1. Assay reproducibility.
  • Fig. S2. Representative peptide array screening results for the Kss1 S147E mutant.
  • Fig. S3. Representative Prk1 in vitro assays.
  • Table S1. Representative peptide array screening results and sequence logos for each of the 61 kinases assayed (also available as a separate PDF with high-resolution images below).
  • Table S2. Protein kinases analyzed in this study.
  • Table S3. Pairwise correlation coefficients for each of four genomic features and the Scansite match score.
  • Table S4. Alignment of yeast kinases analyzed in this study.
  • References

[Download PDF]

Technical Details

Format: Adobe Acrobat PDF

Size: 3.2 MB

Other Supplementary Material for this manuscript includes the following:

  • Table S1
[Download Supplementary Table S1 PDF (Compressed)]

Technical Details

Format: Adobe PDF

Size: 18.6 MB (compressed); 18.7 MB (decompressed)

  • Data set S1. Average PWMs for each of the 61 kinases assayed (plain text files).
  • Data set S2. MOTIPS output for each of the 61 kinases assayed (plain text files).
  • Data set S3. MUSCLE alignment of all predicted S. cerevisiae ORFs with orthologs from 12 other yeast species (clustal alignment files).
  • Data set S4. Alignment of yeast kinases analyzed in this study (clustal alignment file).
[Download Data Set S1 (Compressed)]

Technical Details

Format: Plain Text Files

Size: 54 KB (compressed); 316 KB (decompressed)

[Download Data Set S2 (Compressed)]

Technical Details

Format: Plain Text Files

Size: 6.8 MB (compressed); 17.8 MB (decompressed)

[Download Data Set 3 (Compressed)]

Technical Details

Format: Clustal Alignment Files

Size: 19.1 MB (compressed); 92.0 MB (decompressed)

[Download Data Set 4 (Compressed)]

Technical Details

Format: Clustal Alignment File

Size: 13 KB (compressed); 52 KB (decompressed)


For files packaged as a compressed archive, in *.zip format; users should download the compressed file to their machine and decompress the file on their local hard drive, using the following instructions.

Instructions for downloading and decompressing files:

1. Create a temporary folder on your machine's hard drive.

2. Save the compressed archive to the temporary folder you created, using the links above.

3. Decompress the compressed file in the temporary folder using decompression software, such as WinZip (Windows; www.winzip.com) or StuffIt Expander (Windows and Mac; www.stuffit.com).


Citation: J. Mok, P. M. Kim, H. Y. K. Lam, S. Piccirillo, X. Zhou, G. R. Jeschke, D. L. Sheridan, S. A. Parker, V. Desai, M. Jwa, E. Cameroni, H. Niu, M. Good, A. Remenyi, J.-L. N. Ma, Y.-J. Sheu, H. E. Sassi, R. Sopko, C. S. M. Chan, C. De Virgilio, N. M. Hollingsworth, W. A. Lim, D. F. Stern, B. Stillman, B. J. Andrews, M. B. Gerstein, M. Snyder, B. E. Turk, Deciphering Protein Kinase Specificity Through Large-Scale Analysis of Yeast Phosphorylation Site Motifs. Sci. Signal. 3, ra12 (2010).

© 2010 American Association for the Advancement of Science


To Advertise     Find Products


Science Signaling. ISSN 1937-9145 (online), 1945-0877 (print). Pre-2008: Science's STKE. ISSN 1525-8882