ArticleBiophysical journal2009
Effect of macromolecular crowding on reaction rates: a computational and theoretical study.
Article in Biophysical journal, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed.
- Reaction-Diffusion Dynamics Simulations of Bimolecular Quenching in Solution.Journal of chemical theory and computation · 2026Article
- Protein codes and mobility together shape cellular function and disease.Trends in biochemical sciences · 2026Review
- Article
- High Molecular Crowding in Repair Foci Surrounding DNA Breaks, Measured by Fluorescence Lifetime Imaging Microscopy.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2025Article
- Physical effects of crowdant size and concentration on collective microtubule polymerization.Biophysical journal · 2025Article
- Crowding in Anhydrobiosis.Sub-cellular biochemistry · 2025Review
- Size Sensitivity of Metabolite Diffusion in Macromolecular Crowds.Nano letters · 2024Article
- Kinetic trapping organizes actin filaments within liquid-like protein droplets.Nature communications · 2024Article
- Computational Approaches to Predict Protein-Protein Interactions in Crowded Cellular Environments.Chemical reviews · 2024Review
- Nanoparticle transport in biomimetic polymer-linked emulsions.AIChE journal. American Institute of Chemical Engineers · 2024Article
- Molecular Basis for Actin Polymerization Kinetics Modulated by Solution Crowding.Biomolecules · 2023Article
- Brownian Motion in Optical Tweezers, a Comparison between MD Simulations and Experimental Data in the Ballistic Regime.Polymers · 2023Article
- Topological digestion drives time-varying rheology of entangled DNA fluids.Nature communications · 2022Article
- Atomistic Simulation of Lysozyme in Solutions Crowded by Tetraethylene Glycol: Force Field Dependence.Molecules (Basel, Switzerland) · 2022Article
- Concentration sensing in crowded environments.Biophysical journal · 2021Article
- New Insights into the Functions of Nucleic Acids Controlled by Cellular Microenvironments.Topics in current chemistry (Cham) · 2021Review
- Quantifying the roles of space and stochasticity in computer simulations for cell biology and cellular biochemistry.Molecular biology of the cell · 2021Article
- Cascade Kinetics in an Enzyme-Loaded Aqueous Two-Phase System.Langmuir : the ACS journal of surfaces and colloids · 2020Article
- Macromolecular crowding effects on transcription and translation are regulated by free magnesium ion.Biotechnology and applied biochemistry · 2020Article
- Article
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The effect of macromolecular crowding on the rates of association reactions are investigated using theory and computer simulations. Reactants and crowding agents are both hard spheres, and when two reactants collide they form product with a reaction probability, p(rxn). A value of p(rxn) < 1 crudely mimics the fact that proteins must be oriented properly for an association reaction to occur. The simulations show that the dependence of the reaction rate on the volume fraction of crowding agents varies with the reaction probability. For reaction probabilities close to unity where most of encounters between reactants lead to a reaction, the reaction rate always decreases as the volume fraction of crowding agents is increased due to the reduced diffusion coefficient of reactants. On the other hand, for very small reaction probabilities where, in most of encounters, the reaction does not occur, the reaction rate increases with the volume fraction of crowding agents--in this case, due to the increase probability of a recollision. The Smoluchowski theory refined with the radiation boundary condition and the radial distribution function at contact is in quantitative agreement with simulations for the reaction rate constant and allows the quantitative analysis of both effects separately.
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