探索进化耦合假说:酶的性能提高与耗散增加有关吗?

IF 2.1 3区 物理与天体物理 Q2 PHYSICS, MULTIDISCIPLINARY
Entropy Pub Date : 2025-03-29 DOI:10.3390/e27040365
Davor Juretić
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引用次数: 0

摘要

关于耗散在生命系统中的作用,研究文献提出了不同的观点,其观点从无用到对驱动生命至关重要。普遍热力学演化的含义经常被忽视或被认为是有争议的。熵产率越高,表明热力学演化越快。当所有微观速率常数已知时,我们使用酶动力学的极简模型计算稳态条件下的酶相关耗散。我们发现耗散与酶的周转数大致成正比,耗散与酶的催化效率之间存在对数对数幂律关系。“完美”的特殊酶表现出最高的耗散水平,代表了生物进化的顶峰。我们分析的例子提出了两个关键点:(a)进化程度越高的酶在自由能量耗散方面表现得越好;(b)从通用型酶到特化酶的进化轨迹应该包括后者的耗散增加。在单个酶的动力学中引入随机噪声可能导致超出观测值的最佳性能参数。我们的研究结果表明,生物进化已经通过专门的酶开辟了新的耗散渠道。我们还讨论了我们的研究结果对尺度定律的影响,以及沉浸在非平衡环境中的生命系统中热力学和生物进化之间的无缝耦合。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Exploring the Evolution-Coupling Hypothesis: Do Enzymes' Performance Gains Correlate with Increased Dissipation?

The research literature presents divergent opinions regarding the role of dissipation in living systems, with views ranging from it being useless to it being essential for driving life. The implications of universal thermodynamic evolution are often overlooked or considered controversial. A higher rate of entropy production indicates faster thermodynamic evolution. We calculated enzyme-associated dissipation under steady-state conditions using minimalistic models of enzyme kinetics when all microscopic rate constants are known. We found that dissipation is roughly proportional to the turnover number, and a log-log power-law relationship exists between dissipation and the catalytic efficiency of enzymes. "Perfect" specialized enzymes exhibit the highest dissipation levels and represent the pinnacle of biological evolution. The examples that we analyzed suggested two key points: (a) more evolved enzymes excel in free-energy dissipation, and (b) the proposed evolutionary trajectory from generalist to specialized enzymes should involve increased dissipation for the latter. Introducing stochastic noise in the kinetics of individual enzymes may lead to optimal performance parameters that exceed the observed values. Our findings indicate that biological evolution has opened new channels for dissipation through specialized enzymes. We also discuss the implications of our results concerning scaling laws and the seamless coupling between thermodynamic and biological evolution in living systems immersed in out-of-equilibrium environments.

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来源期刊
Entropy
Entropy PHYSICS, MULTIDISCIPLINARY-
CiteScore
4.90
自引率
11.10%
发文量
1580
审稿时长
21.05 days
期刊介绍: Entropy (ISSN 1099-4300), an international and interdisciplinary journal of entropy and information studies, publishes reviews, regular research papers and short notes. Our aim is to encourage scientists to publish as much as possible their theoretical and experimental details. There is no restriction on the length of the papers. If there are computation and the experiment, the details must be provided so that the results can be reproduced.
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