ArticleJournal of the Royal Society, Interface2017
Macromolecular crowding directs the motion of small molecules inside cells.
Article in Journal of the Royal Society, Interface, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Article
- Modeling collagen fibril degradation as a function of matrix microarchitecture.bioRxiv : the preprint server for biology · 2024Article
- From Protein Film Electrochemistry to Nanoconfined Enzyme Cascades and the Electrochemical Leaf.Chemical reviews · 2023Review
- Fast and precise inference on diffusivity in interacting particle systems.Journal of mathematical biology · 2023Article
- Single-molecule tracking of myelin basic protein during oligodendrocyte differentiation.Biological imaging · 2023Article
- Transcription-dependent confined diffusion of enzymes within subcellular spaces of the bacterial cytoplasm.BMC biology · 2021Article
- Macromolecular crowding effects on the kinetics of opposing reactions catalyzed by alcohol dehydrogenase.Biochemistry and biophysics reports · 2021Article
- Modularize and Unite: Toward Creating a Functional Artificial Cell.Frontiers in molecular biosciences · 2021Review
- Statistics of Nascent and Mature RNA Fluctuations in a Stochastic Model of Transcriptional Initiation, Elongation, Pausing, and Termination.Bulletin of mathematical biology · 2020Article
- Computational Assessment of Transport Distances in Living Skeletal Muscle Fibers Studied In Situ.Biophysical journal · 2020Article
- Dynamic Crowding Regulates Transcription.Biophysical journal · 2020Article
- Nanolipogels as a cell-mimicking platform for controlled release of biomacromolecules.Nanoscale advances · 2020Article
- pSpatiocyte: a high-performance simulator for intracellular reaction-diffusion systems.BMC bioinformatics · 2020Article
- Serotonergic Axons as Fractional Brownian Motion Paths: Insights Into the Self-Organization of Regional Densities.Frontiers in computational neuroscience · 2020Article
- Accurate and efficient discretizations for stochastic models providing near agent-based spatial resolution at low computational cost.Journal of the Royal Society, Interface · 2019Article
- Crowder-Induced Conformational Ensemble Shift in Escherichia coli Prolyl-tRNA Synthetase.Biophysical journal · 2019Article
- Spatial Stochastic Intracellular Kinetics: A Review of Modelling Approaches.Bulletin of mathematical biology · 2019Review
- Particle-Based Simulation Reveals Macromolecular Crowding Effects on the Michaelis-Menten Mechanism.Biophysical journal · 2019Article
- Motion in a crowded environment: the influence of obstacles' size and shape and model of transport.Journal of molecular modeling · 2019Article
- Molecular simulations of cellular processes.Biophysical reviews · 2017Review
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
It is now well established that cell interiors are significantly crowded by macromolecules, which impede diffusion and enhance binding rates. However, it is not fully appreciated that levels of crowding are heterogeneous, and can vary substantially between subcellular regions. In this article, starting from a microscopic model, we derive coupled nonlinear partial differential equations for the concentrations of two populations of large and small spherical particles with steric volume exclusion. By performing an expansion in the ratio of the particle sizes, we find that the diffusion of a small particle in the presence of large particles obeys an advection-diffusion equation, with a reduced diffusion coefficient and a velocity directed towards less crowded regions. The interplay between advection and diffusion leads to behaviour that differs significantly from Brownian diffusion. We show that biologically plausible distributions of macromolecules can lead to highly non-Gaussian probability densities for the small particle position, including asymmetrical and multimodal densities. We confirm all our results using hard-sphere Brownian dynamics simulations.
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