Benjamin E Turk PhD

Associate Professor of Pharmacology

Research Interests

Cell signaling; Protein kinases; Chemical biology; Proteomics; Metalloproteases; Protein engineering

Research Summary

The goal of our research is to understand the molecular mechanisms underlying signaling pathways in eukaryotic cells. The completion of the human genome a decade ago revealed more than 500 genes encoding protein kinases, and mass spectrometry based phosphoproteomics efforts have now cataloged over 100,000 sites of phosphorylation in mammalian cells. These studies have clearly outpaced our ability to understand signaling networks through analysis of individual kinases and their substrates: for the vast majority of the phosphorylation sites, the responsible kinase and functional significance are simply not known. My group studies basic mechanisms used by kinases to target specific substrates within the cell, with the idea of applying this knowledge to identify new kinase-substrate pairs on a proteomic scale. Kinases interact with their substrates through short sequence motifs found both at the site of phosphorylation and at distal sites. We have recently conducted a biochemical screen to identify phosphorylation site motifs recognized by the entire set of kinases from budding yeast. This information is then used to map cellular phosphorylation networks and to relate mechanisms of substrate targeting to specific structural features of kinases. We are also developing new methodology to identify “docking” motifs in substrates that interact with grooves and pockets outside of the kinase active site. One outcome of this work is the identification of new strategies and agents for pharmacological targeting of signaling pathways relevant to disease.

Selected Publications

  • Chen, C., Ha, B. H., Thévenin, A. F., Lou, H. J., Zhang, R., Yip, K. Y., Peterson, J. R., Gerstein, M., Kim, P. M., Filippakopoulos, P., Knapp, S., Boggon, T. J., Turk, B. E. Identification of a major determinant for serine-threonine kinase phosphoacceptor specificity. Mol. Cell 53, 140-147 (2014).
  • Lee, Y. J., Jeschke, G. R., Roelants, F. M., Thorner, J., Turk B. E. Reciprocal phosphorylation of yeast glycerol-3-phosphate dehydrogenases in adaptation to distinct types of stress. Mol. Cell. Biol. 32, 4705-4717 (2012).
  • Bannwarth, L., Goldberg, A. B., Chen, C., Turk, B. E. Identification of exosite-targeting inhibitors of anthrax lethal factor by high throughput screening. Chem. Biol. 19, 875-882 (2012).
  • Mok, J., Kim, P. M., Lam, H. Y. K., Piccirillo, S., Zhou, X., Jeschke, G. R., Sheridan, D. L., Parker, S. A., Desai, V., Jwa, M., Cameroni, E., Niu, H., Good, M., Remenyi, A., Ma, J. N., Sheu, Y., Sassi, H. E., Sopko, R., Chan, C. S. M., De Virgilio, C., Hollingsworth, N. M., Lim, W. A., Stern, D. F., Stillman, B., Andrews, B. J., Gerstein, M. B., Snyder, M. and Turk, B. E. Deciphering protein kinase specificity through large-scale analysis of yeast phosphorylation site motifs. Sci. Signal. 3, ra12 (2010).
  • Turk, B. E. Understanding and exploiting substrate recognition by protein kinases. Curr. Opin. Chem. Biol. 12, 4-10 (2008).

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