RECording

When: 1 November, 15:30 CET (Stockholm time!)

Speaker: Roseanna N. Zia, University of Missouri, US

Title: Toward modeling dynamics in biological suspensions: Patchy Physico-Chemical Interactions in Colloids via Large-Scale Dynamic Simulations

Abstract

Although recent work showed that the speedup of bacterial protein synthesis with growth rate is driven by physical transport, diffusion alone is too slow to bring together matching translation molecules in crowded cytoplasm. Noting that knocking out interactions between ribosomal L12 and elongation factor Tu (EF-Tu) slows translation in vitro, we developed a physico-chemical model of the Escherichia coli cytoplasm including explicit EF-Tu·L12 interactions and elongation reaction kinetics. We found that these interactions shorten the time ribosomes must wait to test new tRNA, doubling elongation speed. In this talk, I focus on the development of our computational model to represent patchy colloidal interactions in a dense suspension, incorporating chemical kinetics from experimental data. I will also discuss our progress in merging this model with our parallelized Accelerated Stokesian dynamics, enabling accurate representation of very large polydisperse systems of interacting colloids.

Contact

Please contact josefin.martell@linxs.lu.se if you have questions.

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