Regensburg 2007 – scientific programme

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BP: Fachverband Biologische Physik

BP 16: Poster Session I

BP 16.10: Poster

Tuesday, March 27, 2007, 17:00–19:30, Poster D

Brownian dynamics simulations of protein cluster assembly — •Jakob Schluttig and Ulrich Schwarz — University of Heidelberg, Im Neuenheimer Feld 293, D-69120 Heidelberg

Most proteins in the cell are active in complexes with two to several hundreds of components. Because only very small assemblies can be studied in an all-atom framework, coarse-grained approaches are required to model the association and dissociation dynamics of larger protein assemblies. We model proteins as spherical particles covered with few binding sites. Their motion is simulated with Brownian dynamics and binding is allowed to occur if two binding sites approach each other to a prescribed encounter length. The diffusion of clusters is treated using bead models for the hydrodynamics in the viscous regime. Using computer simulations, we measure the mean first passage times for the formation of clusters of different sizes.