Shape fluctuations of random polyampholyte and intrinsically disordered protein sequences
Résumé
Based on the molecular dynamics simulations of random model polyampholytes (PAs), we study dynamics of pearls and associated conformational heterogeneity in pearl structures. Fast nucleation/dissolution of small pearls controls the dynamics of the number of pearls, which is well described by first order kinetic equations. Most of individ- ual sequences we considered have a rather stable number of large pearls. Only a few sequences allow for fast switchings in the number of large pearls following complex processes (trajectories in parameter space) going through states with different number of pearls. Processes are most complex in the tail of the switching time distribution. The specific sequence of two Intrinsically Disordered Proteins (IDPs) is studied along the same lines. Our study shows the resemblance in shape fluctuations between the IDP sequences and the fast-switching PA sequences.
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