BIOE Seminar Series: Casim Sarkar (University of Minnesota)
Friday, February 26, 2021
9:00 a.m.-10:00 a.m.
The Spring 2021 seminars will be held virtually on Fridays from 9:00 a.m. – 9:50 a.m., unless otherwise noted. All BIOE faculty, students, staff, postdocs, and affiliates as well as additional subscribers to our weekly seminars emails will receive Zoom event information the week of each seminar.
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Multivalency represents a powerful tool in nature’s toolbox, providing a general strategy for enhancing affinity and specificity of biomolecular interactions relative to monovalent counterparts. However, these emergent biochemical properties and their mechanistic underpinnings have proven difficult to determine as a function of the biophysical properties of the multivalent binding partners. In this talk, I will describe the approaches that our lab has developed to understand and engineer multivalent biomolecular interactions. First, I will show how a structurally-informed mechanistic model can accurately predict the binding kinetics and equilibria of protein-protein interactions as a function of the kinetics of monomer-monomer binding, the properties of the linkers connecting monomer subunits, and the valency of each interacting partner. Given the combinatorial complexity of multivalent interactions and the correspondingly large number of species that can comprise the binding ensemble, the model provides insights into the molecular microstates that drive noncanonical binding dynamics observed in these systems and elucidates strategies to modulate these dynamics. Applications of this model to guide therapeutic design and engineer novel protein-protein interactions will also be discussed. In a second vignette, I will demonstrate how, without detailed structural information, directed evolution can be used to identify key DNA binding determinants of a multivalent recombinase. Furthermore, using data-driven modeling, we can rationally design DNA sequences with predictable recombinase activity for genome engineering and synthetic biology applications.
About the Speaker
Casim Sarkar is an Associate Professor and Director of Graduate Studies in the Department of Biomedical Engineering at the University of Minnesota. He received his B.S. in Chemical Engineering from the University of Texas at Austin and his Ph.D. in Chemical Engineering from MIT. He then conducted postdoctoral research in Biochemistry at the University of Zurich. Dr. Sarkar started his faculty career at the University of Pennsylvania and, in 2013, moved to his present position at the University of Minnesota, where he is also affiliated with the Department of Chemical Engineering and Materials Science, the Institute for Engineering in Medicine, the BioTechnology Institute, the Stem Cell Institute, and the Masonic Cancer Center. His research interests lie in the area of molecular cell engineering, with efforts to understand and control cellular decision making and to engineer new biomolecular and cellular therapeutics. Dr. Sarkar’s honors include a Fannie & John Hertz Foundation Graduate Fellowship, an NIH NRSA Postdoctoral Fellowship, an NSF CAREER Award, and an NIH MIRA Award.