Stepping and crowding of molecular motors: statistical kinetics from an exclusion process perspective

Abstract

Motor enzymes are remarkable molecular machines that use the energy derived from the hydrolysis of a nucleoside triphosphate to generate mechanical movement, achieved through different steps that constitute their kinetic cycle. These macromolecules, nowadays investigated with advanced experimental techniques to unveil their molecular mechanisms and the properties of their kinetic cycles, are implicated in many biological processes, ranging from biopolymerisation (e.g. RNA polymerases and ribosomes) to intracellular transport (motor proteins such as kinesins or dyneins). Although the kinetics of individual motors is well studied on both theoretical and experimental grounds, the repercussions of their stepping cycle on the collective dynamics still remains unclear. Advances in this direction will improve our comprehension of transport process in the natural intracellular medium, where processive motor enzymes might operate in crowded conditions. In this work, we therefore extend the current statistical kinetic analysis to study collective transport phenomena of motors in terms of lattice gas models belonging to the exclusion process class. Via numerical simulations, we show how to interpret and use the randomness calculated from single particle trajectories in crowded conditions. Importantly, we also show that time fluctuations and non-Poissonian behavior are intrinsically related to spatial correlations and the emergence of large, but finite, clusters of co-moving motors. The properties unveiled by our analysis have important biological implications on the collective transport characteristics of processive motor enzymes in crowded conditions.

9 pages, 6 figures, 2 supplementary figures

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Cited by in corpus (8)

• Dynamics of non-Markovian exclusion processes
• Flow Characteristics in a Crowded Transport Model
• Spontaneous Spatiotemporal Ordering of Shape Oscillations Enhances Cell Migration
• Random attraction in the TASEP model
• Exclusion process subject to conformational size changes
• Virial-like Thermodynamic Uncertainty Relation in the Tight-Binding Regime
• Anomalously slow transport in single-file diffusion with slow binding kinetics
• Nonequilibrium phase transition in single-file transport at high crowding