[seminar] Seminar 20. 4. 2023. Shane Fiorenza

[Damjan Pelc]

Drage kolegice i kolege,
zadovoljstvo nam je najaviti sljedeći zajednički seminar Fizičkog odsjeka i
Hrvatskog biofizičkog društva:

Dear colleagues,
it is our pleasure to invite you to the following joint seminar of the
Department of Physics and the Croatian Biophysical Society:

četvrtak/Thursday *20.4.2023. (today)*, *11:00, F201*

*Biophysical Modeling of Cytoskeletal Motor and Crosslinker Cooperativity*

Shane Fiorenza, University of Colorado Boulder

Interactions of cytoskeletal filaments, motor proteins, and crosslinking
proteins drive important cellular processes such as cell division and cell
movement. Cytoskeletal networks also exhibit automated self organization in
vitro, leading to non-equilibrium self-assembly in reconstituted systems.
An emerging problem in cytoskeletal modeling and simulation is
spatiotemporal alteration of the dynamics of filaments, motors, and
associated proteins. This can occur due to motor crowding, obstacles along
the filament, motor interactions and direction switching, and changes,
defects, or heterogeneity in the filament binding lattice. How such
spatiotemporally varying cytoskeletal filaments and motor interactions
affect their collective properties is not fully understood. The
Cytoskeleton Lattice-based Kinetic Simulator (CyLaKS) was developed to
investigate such problems. The simulation model builds on previous work by
incorporating motor mechanochemistry into a simulation with many
interacting motors and/or associated proteins on a discretized binding
lattice. CyLaKS also includes detailed balance in binding kinetics,
movement, and lattice heterogeneity. The simulation framework is flexible
and extensible for future modeling work, and is available on GitHub for
others to freely use or build upon. Here, we derive the biophysical model
used in CyLaKS, illustrate the uses of the framework, and discuss two new
forms of cooperativity that the framework has helped to uncover. The first
is a micron-scale interaction between nanometer-sized motors, and the
second is a novel form of active protein transport driven entirely by
steric exclusion. These results offer new ways of understanding collective
behavior of proteins within the cytoskeleton.


Lijepi pozdrav / best regards

Sanjin Benić & Damjan Pelc
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