Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences

Diffusion-limited association reactions are ubiquitous in nature. They are particularly important for biological reactions, where the reaction rates are often determined by the diffusive transport of the molecules on two-dimensional surfaces, such as the cell membrane. The peculiarities of diffusion...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autor principal:	Sumantra Sarkar
Formato:	article
Lenguaje:	EN
Publicado:	American Physical Society 2020
Materias:	Physics QC1-999
Acceso en línea:	https://doaj.org/article/a231a985aef74ddca38802ae2d4bb806
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:a231a985aef74ddca38802ae2d4bb806
record_format	dspace
spelling	oai:doaj.org-article:a231a985aef74ddca38802ae2d4bb8062021-12-02T11:04:47ZConcentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences10.1103/PhysRevX.10.0410322160-3308https://doaj.org/article/a231a985aef74ddca38802ae2d4bb8062020-11-01T00:00:00Zhttp://doi.org/10.1103/PhysRevX.10.041032http://doi.org/10.1103/PhysRevX.10.041032https://doaj.org/toc/2160-3308Diffusion-limited association reactions are ubiquitous in nature. They are particularly important for biological reactions, where the reaction rates are often determined by the diffusive transport of the molecules on two-dimensional surfaces, such as the cell membrane. The peculiarities of diffusion on two-dimensional surfaces may lead to nontrivial reaction kinetics, such as a concentration-dependent rate of association between two molecules. However, traditionally, the kinetics of biomolecular association reactions has been modeled using the law of mass action, which assumes that the rate of reaction is a concentration-independent constant. In this paper, using multiscale molecular simulation, we investigate the concentration dependence of diffusion-limited association reactions on 2D surfaces. In particular, we quantify the influence of short-ranged pair interactions on the concentration dependence of the reaction rates and codify it in an empirical law. Using this law in a chemical kinetic model, we find that the steady-state behaviors of simple chemical systems are drastically modified by the presence of concentration-dependent rates. In particular, we find that it leads to suppression of intrinsic noise in dimerization reaction and destabilizes robust oscillation in Lotka-Volterra predator-prey systems. In fact, we see a transition from robust to fine-tuned behavior in the steady-state oscillations. In addition, we show that concentration-dependent reaction rates arise naturally in stochastic predator-prey systems due to intrinsic noise. We comment on the consequences of these results and discuss their implications in the modeling of complex chemical and biological systems. In particular, we comment on the range of validity of the law of mass action, which is a staple in all theoretical modeling of these systems.Sumantra SarkarAmerican Physical SocietyarticlePhysicsQC1-999ENPhysical Review X, Vol 10, Iss 4, p 041032 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Physics QC1-999
spellingShingle	Physics QC1-999 Sumantra Sarkar Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
description	Diffusion-limited association reactions are ubiquitous in nature. They are particularly important for biological reactions, where the reaction rates are often determined by the diffusive transport of the molecules on two-dimensional surfaces, such as the cell membrane. The peculiarities of diffusion on two-dimensional surfaces may lead to nontrivial reaction kinetics, such as a concentration-dependent rate of association between two molecules. However, traditionally, the kinetics of biomolecular association reactions has been modeled using the law of mass action, which assumes that the rate of reaction is a concentration-independent constant. In this paper, using multiscale molecular simulation, we investigate the concentration dependence of diffusion-limited association reactions on 2D surfaces. In particular, we quantify the influence of short-ranged pair interactions on the concentration dependence of the reaction rates and codify it in an empirical law. Using this law in a chemical kinetic model, we find that the steady-state behaviors of simple chemical systems are drastically modified by the presence of concentration-dependent rates. In particular, we find that it leads to suppression of intrinsic noise in dimerization reaction and destabilizes robust oscillation in Lotka-Volterra predator-prey systems. In fact, we see a transition from robust to fine-tuned behavior in the steady-state oscillations. In addition, we show that concentration-dependent reaction rates arise naturally in stochastic predator-prey systems due to intrinsic noise. We comment on the consequences of these results and discuss their implications in the modeling of complex chemical and biological systems. In particular, we comment on the range of validity of the law of mass action, which is a staple in all theoretical modeling of these systems.
format	article
author	Sumantra Sarkar
author_facet	Sumantra Sarkar
author_sort	Sumantra Sarkar
title	Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
title_short	Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
title_full	Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
title_fullStr	Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
title_full_unstemmed	Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences
title_sort	concentration dependence of diffusion-limited reaction rates and its consequences
publisher	American Physical Society
publishDate	2020
url	https://doaj.org/article/a231a985aef74ddca38802ae2d4bb806
work_keys_str_mv	AT sumantrasarkar concentrationdependenceofdiffusionlimitedreactionratesanditsconsequences
_version_	1718396305523343360

Concentration Dependence of Diffusion-Limited Reaction Rates and Its Consequences

Ejemplares similares