Dynamic Pathways for Viral Capsid Assembly

Details Dynamic Pathways for Viral Capsid Assembly Dynamic Pathways for Viral Capsid Assembly

2005-11-07

arxiv.org/abs/q-bio/0511006v1

Biology

Quantitative Biology

Biomolecules

13 pages, 13 figures. Submitted to Biophys. J

Scientific paper

10.1529/biophysj.105.076851

We develop a class of models with which we simulate the assembly of particles into T1 capsid-like objects using Newtonian dynamics. By simulating assembly for many different values of system parameters, we vary the forces that drive assembly. For some ranges of parameters, assembly is facile, while for others, assembly is dynamically frustrated by kinetic traps corresponding to malformed or incompletely formed capsids. Our simulations sample many independent trajectories at various capsomer concentrations, allowing for statistically meaningful conclusions. Depending on subunit (i.e., capsomer) geometries, successful assembly proceeds by several mechanisms involving binding of intermediates of various sizes. We discuss the relationship between these mechanisms and experimental evaluations of capsid assembly processes.

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