Does Electric Friction Matter in Living Cells?

Mesoscale properties of biomolecular condensates emerging from protein chain dynamics

Biomolecular condensates form by phase separation of biological polymers and have important functions in the cell - functions that are inherently connected to their physical properties. A remarkable aspect of such condensates is that their viscoelastic properties can vary by orders of magnitude, but it has remained unclear how these pronounced differences are rooted in the nanoscale dynamics at the molecular level. Here we investigate a series of condensates formed by complex coacervation that span about two orders of magnitude in molecular dynamics, diffusivity, and viscosity. We find that the nanoscale chain dynamics on the nano- to microsecond timescale can be accurately related to both translational diffusion and mesoscale condensate viscosity by analytical relations from polymer physics. Atomistic simulations reveal that the observed differences in friction - a key quantity underlying these relations - are caused by differences in inter-residue contact lifetimes, leading to the vastly different dynamics among the condensates. The rapid exchange of inter-residue contacts we observe may be a general mechanism for preventing dynamic arrest in compartments densely packed with polyelectrolytes, such as the cell nucleus.

Electrostatics and hydrophobicity in the dynamics of intrinsically disordered proteins

Internal friction is a major contribution to the dynamics of intrinsically disordered proteins (IDPs). Yet, the molecular origin of internal friction has so far been elusive. Here, we investigate whether attractive electrostatic interactions in IDPs modulate internal friction differently than the hydrophobic effect. To this end, we used nanosecond fluorescence correlation spectroscopy (nsFCS) and single-molecule Förster resonance energy transfer (FRET) to quantify the conformation and dynamics of the disordered DNA-binding domains Myc, Max and Mad at different salt concentrations. We find that internal friction effects are stronger when the chain is compacted by electrostatic attractions compared to the hydrophobic effect. Although the effect is moderate, the results show that the heteropolymeric nature of IDPs is reflected in their dynamics.

How it feels in a cell

Life emerges from thousands of biochemical processes occurring within a shared intracellular environment. We have gained deep insights from in vitro reconstitution of isolated biochemical reactions. However, the reaction medium in test tubes is typically simple and diluted. The cell interior is far more complex: macromolecules occupy more than a third of the space, and energy-consuming processes agitate the cell interior. Here, we review how this crowded, active environment impacts the motion and assembly of macromolecules, with an emphasis on mesoscale particles (10-1000 nm diameter). We describe methods to probe and analyze the biophysical properties of cells and highlight how changes in these properties can impact physiology and signaling, and potentially contribute to aging, and diseases, including cancer and neurodegeneration.

From generalized Langevin stochastic dynamics to anomalous diffusion

Scaling methods are fundamental in all branches of physics. In stochastic process, we usually try to describe the long time behavior of a given time correlation function. In this work we investigate a scaling method for anomalous diffusion in systems with memory that produces good results for long and intermediate times. We will initially present a generalization of the diffusion exponent. Then, we present an asymptotic method to obtain an analytical expression for the diffusion coefficient by introducing a time scale factor λ(t). We found an exact expression for the function λ(t), which allows us to describe the diffusive process. For large times, λ(t) becomes a universal parameter determined by the diffusion exponent. In turn, the analytical results are then compared to the numerical results, with a good matching. Then, we'll show the practical effects of scaling. An important first result is that λ(t) quickly converges to a constant. Another very important point was the classification of new forms of diffusion due to the generalized exponent. In previous works, we verified the existence of ergodic ballistic diffusion with diffusion exponent α=2^{-}. Here, we verify the existence of the nonergodic ballistic diffusion type with the obtainment of the diffusion coefficient α=2. Finally, we show that the scaling works. This method is general and can be applied to various types of stochastic problems.