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由酶活性促进的生物分子凝聚物的非平衡相

Nonequilibrium phases of a biomolecular condensate facilitated by enzyme activity.

作者信息

Coupe Sebastian, Fakhri Nikta

机构信息

Department of Biology, Massachusetts Institute of Technology, Cambridge, MA.

Department of Physics, Massachusetts Institute of Technology, Cambridge, MA.

出版信息

bioRxiv. 2024 Aug 11:2024.08.11.607499. doi: 10.1101/2024.08.11.607499.

DOI:10.1101/2024.08.11.607499
PMID:39149291
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11326260/
Abstract

Biomolecular condensates represent a frontier in cellular organization, existing as dynamic materials driven out of equilibrium by active cellular processes. Here we explore active mechanisms of condensate regulation by examining the interplay between DEAD-box helicase activity and RNA base-pairing interactions within ribonucleoprotein condensates. We demonstrate how the ATP-dependent activity of DEAD-box helicases-a key class of enzymes in condensate regulation-acts as a nonequilibrium driver of condensate properties through the continuous remodeling of RNA interactions. By combining the LAF-1 DEAD-box helicase with a designer RNA hairpin concatemer, we unveil a complex landscape of dynamic behaviors, including time-dependent alterations in RNA partitioning, evolving condensate morphologies, and shifting condensate dynamics. Importantly, we reveal an antagonistic relationship between RNA secondary structure and helicase activity which promotes condensate homogeneity via a nonequilibrium steady state. By elucidating these nonequilibrium mechanisms, we gain a deeper understanding of cellular organization and expand the potential for active synthetic condensate systems.

摘要

生物分子凝聚物是细胞组织研究的前沿领域,作为由活跃的细胞过程驱动而远离平衡态的动态物质而存在。在这里,我们通过研究核糖核蛋白凝聚物中DEAD盒解旋酶活性与RNA碱基配对相互作用之间的相互作用,探索凝聚物调控的活性机制。我们展示了DEAD盒解旋酶(凝聚物调控中的一类关键酶)的ATP依赖活性如何通过RNA相互作用的持续重塑,作为凝聚物性质的非平衡驱动因素。通过将LAF-1 DEAD盒解旋酶与设计的RNA发夹串联体相结合,我们揭示了一个复杂的动态行为景观,包括RNA分配的时间依赖性变化、不断演变的凝聚物形态以及凝聚物动力学的转变。重要的是,我们揭示了RNA二级结构与解旋酶活性之间的拮抗关系,这种关系通过非平衡稳态促进凝聚物的均匀性。通过阐明这些非平衡机制,我们对细胞组织有了更深入的理解,并扩展了活性合成凝聚物系统的潜力。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/bb7e130c88d1/nihpp-2024.08.11.607499v1-f0005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/1a5185e75132/nihpp-2024.08.11.607499v1-f0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/face2b062fb2/nihpp-2024.08.11.607499v1-f0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/cf53a2cf7be4/nihpp-2024.08.11.607499v1-f0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/b03b5c556978/nihpp-2024.08.11.607499v1-f0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/bb7e130c88d1/nihpp-2024.08.11.607499v1-f0005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/1a5185e75132/nihpp-2024.08.11.607499v1-f0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/face2b062fb2/nihpp-2024.08.11.607499v1-f0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/cf53a2cf7be4/nihpp-2024.08.11.607499v1-f0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/b03b5c556978/nihpp-2024.08.11.607499v1-f0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5e3e/11326260/bb7e130c88d1/nihpp-2024.08.11.607499v1-f0005.jpg

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本文引用的文献

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Kinetic trapping organizes actin filaments within liquid-like protein droplets.动力学捕获将肌动蛋白丝组织在类似液体的蛋白质液滴内。
Nat Commun. 2024 Apr 11;15(1):3139. doi: 10.1038/s41467-024-46726-6.
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Liquid spherical shells are a non-equilibrium steady state of active droplets.液滴球壳是活性液滴的一种非平衡稳态。
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ATP-induced cross-linking of a biomolecular condensate.三磷酸腺苷诱导生物分子凝聚物的交联。
Biophys J. 2024 Jun 4;123(11):1356-1366. doi: 10.1016/j.bpj.2023.07.013. Epub 2023 Jul 21.
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Phase-specific RNA accumulation and duplex thermodynamics in multiphase coacervate models for membraneless organelles.多相凝聚模型中无膜细胞器的阶段性 RNA 积累和双链热动力学。
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Aging can transform single-component protein condensates into multiphase architectures.衰老是如何将单组份蛋白质凝聚物转化为多相结构的。
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