Počet záznamů: 1
Collective catalysis under spatial constraints: Phase separation and size-scaling effects on mass action kinetics
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SYSNO ASEP 0577944 Druh ASEP J - Článek v odborném periodiku Zařazení RIV J - Článek v odborném periodiku Poddruh J Článek ve WOS Název Collective catalysis under spatial constraints: Phase separation and size-scaling effects on mass action kinetics Tvůrce(i) Lauber, N. (ES)
Ticháček, Ondřej (UOCHB-X) ORCID, RID
Narayanankutty, K. (ES)
De Martino, D. (ES)
Ruiz-Mirazo, K. (ES)Číslo článku 044410 Zdroj.dok. Physical Review E. - : American Physical Society - ISSN 2470-0045
Roč. 108, č. 4 (2023)Poč.str. 15 s. Jazyk dok. eng - angličtina Země vyd. US - Spojené státy americké Klíč. slova Monte-Carlo simulations ; diffusion ; systems Obor OECD Physical chemistry Způsob publikování Open access Institucionální podpora UOCHB-X - RVO:61388963 UT WOS 001095303400003 EID SCOPUS 85175437885 DOI https://doi.org/10.1103/PhysRevE.108.044410 Anotace Chemical reactions are usually studied under the assumption that both substrates and catalysts are well-mixed (WM) throughout the system. Although this is often applicable to test-tube experimental conditions, it is not realistic in cellular environments, where biomolecules can undergo liquid-liquid phase separation (LLPS) and form condensates, leading to important functional outcomes, including the modulation of catalytic action. Similar processes may also play a role in protocellular systems, like primitive coacervates, or in membrane-assisted prebiotic pathways. Here we explore whether the demixing of catalysts could lead to the formation of microenvironments that influence the kinetics of a linear (multistep) reaction pathway, as compared to a WM system. We implemented a general lattice model to simulate LLPS of a collection of different catalysts and extended it to include diffusion and a sequence of reactions of small substrates. We carried out a quantitative analysis of how the phase separation of the catalysts affects reaction times depending on the affinity between substrates and catalysts, the length of the reaction pathway, the system size, and the degree of homogeneity of the condensate. A key aspect underlying the differences reported between the two scenarios is that the scale invariance observed in the WM system is broken by condensation processes. The main theoretical implications of our results for mean-field chemistry are drawn, extending the mass action kinetics scheme to include substrate initial “hitting times“ to reach the catalysts condensate. We finally test this approach by considering open nonlinear conditions, where we successfully predict, through microscopic simulations, that phase separation inhibits chemical oscillatory behavior, providing a possible explanation for the marginal role that this complex dynamic behavior plays in real metabolisms. Pracoviště Ústav organické chemie a biochemie Kontakt asep@uochb.cas.cz ; Kateřina Šperková, Tel.: 232 002 584 ; Jana Procházková, Tel.: 220 183 418 Rok sběru 2024 Elektronická adresa https://doi.org/10.1103/PhysRevE.108.044410
Počet záznamů: 1