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bioRxiv · 10.1101/2022.11.19.517069

Grand canonical Brownian dynamics simulations of adsorption and self-assembly of SAS-6 rings on a surface

Gomez Melo, S.·Wörthmüller, D.·Gönczy, P.·Banterle, N.·Schwarz, U. S.
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Abstract

The protein SAS-6 forms dimers, which then self-assemble into rings that are critical for the nine-fold symmetry of the centriole organelle. It has recently been shown experimentally that the self-assembly of SAS-6 rings is strongly facilitated on a surface, shifting the reaction equilibrium by four orders of magnitude compared to the bulk. Moreover, a fraction of non-canonical symmetries (i.e., different from nine) was observed. In order to understand which aspects of the system are relevant to ensure efficient self-assembly and selection of the nine-fold symmetry, we have performed Brownian dynamics computer simulation with patchy particles and then compared our results with experimental ones. Adsorption onto the surface was simulated by a Grand Canonical Monte Carlo procedure and Random Sequential Adsorption kinetics. Furthermore, self-assembly was described by Langevin equations with hydrodynamic mobility matrices. We find that as long as the interaction energies are weak, the assembly kinetics can be described well by the coagulation-fragmentation equations in the reaction-limited approximation. By contrast, larger interaction energies lead to kinetic trapping and diffusion-limited assembly. We find that selection of nine-fold symmetry requires a small value for the angular interaction range. These predictions are confirmed by the experimentally observed reaction constant and angle fluctuations. Overall, our simulations suggest that the SAS-6 system works at the crossover between a relatively weak binding energy that avoids kinetic trapping and a small angular range that favors the nine-fold symmetry.

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Gomez Melo, S., Wörthmüller, D., Gönczy, P., Banterle, N., Schwarz, U. S.. 2022-11-20. Grand canonical Brownian dynamics simulations of adsorption and self-assembly of SAS-6 rings on a surface. https://doi.org/10.1101/2022.11.19.517069

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