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Exploring cross-α amyloids: from functional roles to design innovations. 探索交叉α淀粉样蛋白：从功能作用到设计创新。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-06 DOI: 10.1016/j.tibs.2024.10.004
Sukantha Dey, Rohit Kumar, Rajkumar Mishra, Santu Bera
{"title":"Exploring cross-α amyloids: from functional roles to design innovations.","authors":"Sukantha Dey, Rohit Kumar, Rajkumar Mishra, Santu Bera","doi":"10.1016/j.tibs.2024.10.004","DOIUrl":"https://doi.org/10.1016/j.tibs.2024.10.004","url":null,"abstract":"<p><p>Amyloids are filamentous protein aggregates that have traditionally been associated with neurodegenerative diseases, although they are also known to play pivotal functional roles across diverse forms of life. Although the cross-β structure has represented the hallmark of amyloidal assemblies, a cross-α structure was recently characterized as a functional microbial amyloid, and further work has shown that de novo designed sequences also assemble into cross-α amyloids, emphasizing cross-α as an alternative paradigm for self-assembly into ordered aggregates. In this review, we summarize recent discoveries of cross-α amyloids both in nature and artificially designed systems, and we describe their fundamental structural organization, self-assembly mechanisms, and biological functions. Finally, we outline the future opportunities for research and development in this potential field.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142602327","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Two hearts beat as one: the debate over RAS dimers continues. 两心相印：关于 RAS 二聚体的争论仍在继续。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-10-01 DOI: 10.1016/j.tibs.2024.09.005
Andrew G Stephen
{"title":"Two hearts beat as one: the debate over RAS dimers continues.","authors":"Andrew G Stephen","doi":"10.1016/j.tibs.2024.09.005","DOIUrl":"10.1016/j.tibs.2024.09.005","url":null,"abstract":"<p><p>A recent report by Yun et al. describes the detection of RAS dimers using intact mass spectrometry and investigates the role that membrane lipids, nucleotide state, and binding partners have in their formation.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142363886","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Advancing sustainable biotechnology through protein engineering. 通过蛋白质工程推进可持续生物技术。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-09-03 DOI: 10.1016/j.tibs.2024.07.006
Amelia R Bergeson, Hal S Alper
{"title":"Advancing sustainable biotechnology through protein engineering.","authors":"Amelia R Bergeson, Hal S Alper","doi":"10.1016/j.tibs.2024.07.006","DOIUrl":"10.1016/j.tibs.2024.07.006","url":null,"abstract":"<p><p>The push for industrial sustainability benefits from the use of enzymes as a replacement for traditional chemistry. Biological catalysts, especially those that have been engineered for increased activity, stability, or novel function, and are often greener than alternative chemical approaches. This Review highlights the role of engineered enzymes (and identifies directions for further engineering efforts) in the application areas of greenhouse gas sequestration, fuel production, bioremediation, and degradation of plastic wastes.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142131555","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The inositol phosphate signalling network in physiology and disease. 生理和疾病中的磷酸肌醇信号网络。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-09-23 DOI: 10.1016/j.tibs.2024.08.005
Seyun Kim, Rashna Bhandari, Charles A Brearley, Adolfo Saiardi
{"title":"The inositol phosphate signalling network in physiology and disease.","authors":"Seyun Kim, Rashna Bhandari, Charles A Brearley, Adolfo Saiardi","doi":"10.1016/j.tibs.2024.08.005","DOIUrl":"10.1016/j.tibs.2024.08.005","url":null,"abstract":"<p><p>Combinatorial substitution of phosphate groups on the inositol ring gives rise to a plethora of inositol phosphates (InsPs) and inositol pyrophosphates (PP-InsPs). These small molecules constitute an elaborate metabolic and signalling network that influences nearly every cellular function. This review delves into the knowledge accumulated over the past decades regarding the biochemical principles and significance of InsP metabolism. We focus on the biological actions of InsPs in mammals, with an emphasis on recent findings regarding specific target proteins. We further discuss the roles of InsP metabolism in contributing to physiological homeostasis and pathological conditions. A deeper understanding of InsPs and their metabolic pathways holds the potential to address unresolved questions and propel advances towards therapeutic applications.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142338676","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
New opportunities to overcome T cell dysfunction: the role of transcription factors and how to target them. 克服 T 细胞功能障碍的新机遇：转录因子的作用及其靶向方法。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-09-13 DOI: 10.1016/j.tibs.2024.08.002
Bocheng Wu, Angela N Koehler, Peter M K Westcott
{"title":"New opportunities to overcome T cell dysfunction: the role of transcription factors and how to target them.","authors":"Bocheng Wu, Angela N Koehler, Peter M K Westcott","doi":"10.1016/j.tibs.2024.08.002","DOIUrl":"10.1016/j.tibs.2024.08.002","url":null,"abstract":"<p><p>Immune checkpoint blockade (ICB) therapies, which block inhibitory receptors on T cells, can be efficacious in reinvigorating dysfunctional T cell responses. However, most cancers do not respond to these therapies and even in those that respond, tumors can acquire resistance. New strategies are needed to rescue and recruit T cell responses across patient populations and disease states. In this review, we define mechanisms of T cell dysfunction, focusing on key transcription factor (TF) networks. We discuss the complex and sometimes contradictory roles of core TFs in both T cell function and dysfunction. Finally, we review strategies to target TFs using small molecule modulators, which represent a challenging but highly promising opportunity to tune the T cell response toward sustained immunity.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142278406","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Bridging brain insulin resistance to Alzheimer's pathogenesis. 将大脑胰岛素抵抗与阿尔茨海默氏症发病机制联系起来。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-10-01 DOI: 10.1016/j.tibs.2024.09.004
Wenqiang Chen, Valdemar Brimnes Ingemann Johansen, Cristina Legido-Quigley
{"title":"Bridging brain insulin resistance to Alzheimer's pathogenesis.","authors":"Wenqiang Chen, Valdemar Brimnes Ingemann Johansen, Cristina Legido-Quigley","doi":"10.1016/j.tibs.2024.09.004","DOIUrl":"10.1016/j.tibs.2024.09.004","url":null,"abstract":"<p><p>Emerging evidence links type 2 diabetes mellitus (T2DM) and Alzheimer's disease (AD), with brain insulin resistance (BIR) as a key factor. In a recent study, Lanzillotta et al. reveal that reduced biliverdin reductase-A (BVR-A) impairs glycogen synthase kinase 3β (GSK3β) phosphorylation, causing mitochondrial dysfunction and exacerbating brain insulin resistance in the progression of both T2DM and AD.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142363885","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The quest to identify ADP-ribosylation readers: methodological advances. 鉴别 ADP 核糖基化阅读器的探索：方法学上的进步。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-09-19 DOI: 10.1016/j.tibs.2024.08.006
Suzanne A Weijers, Michiel Vermeulen, Katarzyna W Kliza
{"title":"The quest to identify ADP-ribosylation readers: methodological advances.","authors":"Suzanne A Weijers, Michiel Vermeulen, Katarzyna W Kliza","doi":"10.1016/j.tibs.2024.08.006","DOIUrl":"10.1016/j.tibs.2024.08.006","url":null,"abstract":"<p><p>ADP-ribosylation regulates numerous fundamental cellular processes in health and disease. However, the limited availability of suitable tools and methods prevents the identification and characterization of certain components of the ADP-ribosylation signaling network and, consequently, efficient utilization of their biomedical potential. Identification of ADP-ribose (ADPr) readers has been particularly impeded by challenges associated with the development of ADPr-based enrichment probes. These difficulties were finally overcome in several recent studies describing various approaches to identifying ADPr readers in an unbiased, proteome-wide manner. In this review we discuss these different strategies and their limitations, benefits and drawbacks, and summarize how these technologies contribute to a dissection of ADP-ribosylation signaling networks. We also address unmet technological needs and future directions to investigate interactions with ADPr linkages.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142278407","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Nanobody-assisted cryoEM structural determination for challenging proteins. 纳米体辅助低温电子显微镜结构测定具有挑战性的蛋白质。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-06-20 DOI: 10.1016/j.tibs.2024.06.002
Xudong Wu
{"title":"Nanobody-assisted cryoEM structural determination for challenging proteins.","authors":"Xudong Wu","doi":"10.1016/j.tibs.2024.06.002","DOIUrl":"10.1016/j.tibs.2024.06.002","url":null,"abstract":"","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141436529","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Surfaces as frameworks for intracellular organization. 作为细胞内组织框架的表面。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-10-07 DOI: 10.1016/j.tibs.2024.07.007
Germán Rivas, Allen P Minton
{"title":"Surfaces as frameworks for intracellular organization.","authors":"Germán Rivas, Allen P Minton","doi":"10.1016/j.tibs.2024.07.007","DOIUrl":"10.1016/j.tibs.2024.07.007","url":null,"abstract":"<p><p>A large fraction of soluble protein within the interior of living cells may reversibly associate with structural elements, including proteinaceous fibers and phospholipid membranes. In this opinion, we present theoretical and experimental evidence that many of these associations are due to nonspecific attraction between the protein and the surface of the fiber or membrane, and that such associations may lead to substantial changes in the association state of the adsorbed proteins, the biological function of the adsorbed proteins, and the distribution of these proteins between the many microenvironments existing within the cell.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142387123","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Efficient PROTAC-ing: combinational use of PROTACs with signaling pathway inhibitors. 高效 PROTAC-ing：将 PROTAC 与信号通路抑制剂结合使用。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2024-11-01 Epub Date: 2024-09-26 DOI: 10.1016/j.tibs.2024.09.002
Yuri Shibata
{"title":"Efficient PROTAC-ing: combinational use of PROTACs with signaling pathway inhibitors.","authors":"Yuri Shibata","doi":"10.1016/j.tibs.2024.09.002","DOIUrl":"10.1016/j.tibs.2024.09.002","url":null,"abstract":"<p><p>Targeted protein degradation is an innovative therapeutic modality for the degradation of disease-causing proteins. In a recent report combining high-throughput screening of small-molecule compounds and biochemical analyses, Mori et al. identified certain inhibitors of cellular pathways, such as PARylation and proteostatic pathways, which enhance proteolysis-targeting chimera (PROTAC)-induced protein degradation.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":null,"pages":null},"PeriodicalIF":11.6,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142338674","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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