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Lone Pair−π Interactions in Organic Reactions 有机反应中的孤对π相互作用
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-13 DOI: 10.1021/acs.chemrev.4c00516
Yu Chen, Qianqian Zhen, Fan-Jie Meng, Peiyuan Yu, Chen Xu
Noncovalent interactions between a lone pair of electrons and π systems can be categorized into two types based on the nature of π systems. Lone pair−π(C═O) interactions with π systems of unsaturated, polarized bonds are primarily attributed to orbital interactions, whereas lone pair−π(Ar) interactions with π systems of aromatic functional groups result from electrostatic attractions (for electron-deficient aryls) or dispersion attractions and Pauli repulsions (for electron-rich/neutral aryls). Unlike well-established noncovalent interactions, lone pair−π interactions have been comparatively underappreciated or less used to influence reaction outcomes. This review emphasizes experimental and computational studies aimed at integrating lone pair−π interactions into the design of catalytic systems and utilizing these interactions to regulate the reactivity and selectivity of chemical transformations. The role of lone pair−π interactions is highlighted in the stabilization or destabilization of transition states and ground-state binding. Examples influenced by lone pair−π interactions with both unsaturated, polarized bonds and aromatic rings as π systems are included. At variance with previous reviews, the present review is not structured according to the physical origin of particular classes of lone pair−π interactions but is divided into chapters according to ways in which lone pair−π interactions affect kinetics and/or selectivity of reactions.
孤对电子与 π 系统之间的非共价相互作用可根据 π 系统的性质分为两类。孤对电子-π(C═O)与不饱和、极化键的π系统之间的相互作用主要归因于轨道相互作用,而孤对电子-π(Ar)与芳香官能团的π系统之间的相互作用则来自静电吸引(对于电子缺乏的芳基)或色散吸引和保利排斥(对于电子丰富/中性的芳基)。与公认的非共价相互作用不同,孤对-π相互作用一直未得到足够重视,或较少用于影响反应结果。本综述强调实验和计算研究,旨在将孤对π相互作用整合到催化系统的设计中,并利用这些相互作用来调节化学转化的反应性和选择性。研究强调了孤对π相互作用在稳定或破坏过渡态和基态结合方面的作用。其中包括受孤对π相互作用影响的不饱和、极化键和作为π系统的芳香环的例子。与以往的综述不同的是,本综述不是根据孤对-π相互作用特定类别的物理起源来编排的,而是根据孤对-π相互作用影响反应动力学和/或选择性的方式来划分章节的。
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引用次数: 0
Genetic Code Expansion History and Modern Innovations. 基因密码扩展历史与现代创新。
IF 51.4 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-13 Epub Date: 2024-10-28 DOI: 10.1021/acs.chemrev.4c00275
Alan Costello, Alexander A Peterson, Pei-Hsin Chen, Rustam Bagirzadeh, David L Lanster, Ahmed H Badran

The genetic code is the foundation for all life. With few exceptions, the translation of nucleic acid messages into proteins follows conserved rules, which are defined by codons that specify each of the 20 proteinogenic amino acids. For decades, leading research groups have developed a catalogue of innovative approaches to extend nature's amino acid repertoire to include one or more noncanonical building blocks in a single protein. In this review, we summarize advances in the history of in vitro and in vivo genetic code expansion, and highlight recent innovations that increase the scope of biochemically accessible monomers and codons. We further summarize state-of-the-art knowledge in engineered cellular translation, as well as alterations to regulatory mechanisms that improve overall genetic code expansion. Finally, we distill existing limitations of these technologies into must-have improvements for the next generation of technologies, and speculate on future strategies that may be capable of overcoming current gaps in knowledge.

遗传密码是所有生命的基础。除少数例外,核酸信息翻译成蛋白质的过程遵循保守规则,这些规则由密码子确定,密码子分别指定了 20 种可产生蛋白质的氨基酸。几十年来,领先的研究小组开发了一系列创新方法,以扩展自然界的氨基酸库,在单个蛋白质中包含一个或多个非密码构建模块。在这篇综述中,我们总结了体外和体内遗传密码扩增的历史进展,并重点介绍了最近的创新,这些创新扩大了生物化学上可获得的单体和密码子的范围。我们进一步总结了工程化细胞翻译的最新知识,以及可改善整体遗传密码扩增的调控机制的改变。最后,我们将这些技术的现有局限性提炼为下一代技术必须改进的地方,并推测未来的战略可能能够克服当前的知识差距。
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引用次数: 0
How to Assess and Predict Electrical Double Layer Properties. Implications for Electrocatalysis 如何评估和预测双电层特性?对电催化的影响
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-11 DOI: 10.1021/acs.chemrev.3c00806
Christian M. Schott, Peter M. Schneider, Kun-Ting Song, Haiting Yu, Rainer Götz, Felix Haimerl, Elena Gubanova, Jian Zhou, Thorsten O. Schmidt, Qiwei Zhang, Vitaly Alexandrov, Aliaksandr S. Bandarenka
The electrical double layer (EDL) plays a central role in electrochemical energy systems, impacting charge transfer mechanisms and reaction rates. The fundamental importance of the EDL in interfacial electrochemistry has motivated researchers to develop theoretical and experimental approaches to assess EDL properties. In this contribution, we review recent progress in evaluating EDL characteristics such as the double-layer capacitance, highlighting some discrepancies between theory and experiment and discussing strategies for their reconciliation. We further discuss the merits and challenges of various experimental techniques and theoretical approaches having important implications for aqueous electrocatalysis. A strong emphasis is placed on the substantial impact of the electrode composition and structure and the electrolyte chemistry on the double-layer properties. In addition, we review the effects of temperature and pressure and compare solid–liquid interfaces to solid–solid interfaces.
电双层 (EDL) 在电化学能量系统中发挥着核心作用,影响着电荷转移机制和反应速率。EDL 在界面电化学中的根本重要性促使研究人员开发出评估 EDL 特性的理论和实验方法。在本文中,我们回顾了评估 EDL 特性(如双层电容)的最新进展,强调了理论与实验之间的一些差异,并讨论了协调这些差异的策略。我们进一步讨论了对水电催化具有重要影响的各种实验技术和理论方法的优点和挑战。我们特别强调了电极组成和结构以及电解质化学对双电层特性的重大影响。此外,我们还回顾了温度和压力的影响,并将固液界面与固固界面进行了比较。
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引用次数: 0
Opportunities for Therapeutic Modulation of O-GlcNAc 治疗调节 O-GlcNAc 的机会
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-07 DOI: 10.1021/acs.chemrev.4c00417
Steven S. Cheng, Alison C. Mody, Christina M. Woo
O-Linked β-N-acetylglucosamine (O-GlcNAc) is an essential, dynamic monosaccharide post-translational modification (PTM) found on serine and threonine residues of thousands of nucleocytoplasmic proteins. The installation and removal of O-GlcNAc is controlled by a single pair of enzymes, O-GlcNAc transferase (OGT) and O-GlcNAcase (OGA), respectively. Since its discovery four decades ago, O-GlcNAc has been found on diverse classes of proteins, playing important functional roles in many cellular processes. Dysregulation of O-GlcNAc homeostasis has been implicated in the pathogenesis of disease, including neurodegeneration, X-linked intellectual disability (XLID), cancer, diabetes, and immunological disorders. These foundational studies of O-GlcNAc in disease biology have motivated efforts to target O-GlcNAc therapeutically, with multiple clinical candidates under evaluation. In this review, we describe the characterization and biochemistry of OGT and OGA, cellular O-GlcNAc regulation, development of OGT and OGA inhibitors, O-GlcNAc in pathophysiology, clinical progress of O-GlcNAc modulators, and emerging opportunities for targeting O-GlcNAc. This comprehensive resource should motivate further study into O-GlcNAc function and inspire strategies for therapeutic modulation of O-GlcNAc.
O-连接β-N-乙酰葡糖胺(O-GlcNAc)是一种重要的动态单糖翻译后修饰(PTM),存在于数千种核细胞质蛋白质的丝氨酸和苏氨酸残基上。O-GlcNAc 的安装和去除分别由一对酶控制,即 O-GlcNAc 转移酶(OGT)和 O-GlcNAc 酶(OGA)。自 40 年前发现 O-GlcNAc 以来,O-GlcNAc 已出现在多种蛋白质上,在许多细胞过程中发挥着重要的功能作用。O-GlcNAc平衡失调与疾病的发病机制有关,包括神经变性、X连锁智力障碍(XLID)、癌症、糖尿病和免疫性疾病。这些关于 O-GlcNAc 在疾病生物学中的基础研究推动了针对 O-GlcNAc 治疗的努力,目前有多个临床候选药物正在接受评估。在这篇综述中,我们介绍了 OGT 和 OGA 的特征和生物化学、细胞 O-GlcNAc 调节、OGT 和 OGA 抑制剂的开发、病理生理学中的 O-GlcNAc、O-GlcNAc 调节剂的临床进展以及靶向 O-GlcNAc 的新机遇。这一全面的资料应能激励人们进一步研究 O-GlcNAc 的功能,并为 O-GlcNAc 的治疗调节策略提供灵感。
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引用次数: 0
Challenges and Prospects of DNA-Encoded Library Data Interpretation DNA 编码文库数据解读的挑战与前景
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-07 DOI: 10.1021/acs.chemrev.4c00284
Moreno Wichert, Laura Guasch, Raphael M. Franzini
DNA-encoded library (DEL) technology is a powerful platform for the efficient identification of novel chemical matter in the early drug discovery process enabled by parallel screening of vast libraries of encoded small molecules through affinity selection and deep sequencing. While DEL selections provide rich data sets for computational drug discovery, the underlying technical factors influencing DEL data remain incompletely understood. This review systematically examines the key parameters affecting the chemical information in DEL data and their impact on hit triaging and machine learning integration. The need for rigorous data handling and interpretation is emphasized, with standardized methods being critical for the success of DEL-based approaches. Major challenges include the relationship between sequence counts and binding affinities, frequent hitters, and the influence of factors such as inhomogeneous library composition, DNA damage, and linkers on binding modes. Experimental artifacts, such as those caused by protein immobilization and screening matrix effects, further complicate data interpretation. Recent advancements in using machine learning to denoise DEL data and predict drug candidates are highlighted. This review offers practical guidance on adopting best practices for integrating robust methodologies, comprehensive data analysis, and computational tools to improve the accuracy and efficacy of DEL-driven hit discovery.
DNA 编码文库(DEL)技术是在早期药物发现过程中高效识别新型化学物质的强大平台,它通过亲和选择和深度测序对大量编码小分子文库进行平行筛选。虽然 DEL 筛选为计算药物发现提供了丰富的数据集,但人们对影响 DEL 数据的基本技术因素仍不甚了解。本综述系统地研究了影响 DEL 数据中化学信息的关键参数及其对命中分选和机器学习整合的影响。强调了严格处理和解释数据的必要性,标准化方法是基于 DEL 方法取得成功的关键。面临的主要挑战包括序列数与结合亲和力之间的关系、常中者以及非均质文库组成、DNA损伤和连接体等因素对结合模式的影响。蛋白质固定和筛选基质效应等造成的实验假象使数据解读更加复杂。本文重点介绍了利用机器学习对 DEL 数据进行去噪和预测候选药物的最新进展。本综述为采用最佳实践提供了实用指导,以整合稳健的方法学、全面的数据分析和计算工具,提高 DEL 驱动的新药发现的准确性和有效性。
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引用次数: 0
Noncanonical Amino Acid Tools and Their Application to Membrane Protein Studies 非典型氨基酸工具及其在膜蛋白研究中的应用
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-07 DOI: 10.1021/acs.chemrev.4c00181
Chiara De Faveri, Jordan M. Mattheisen, Thomas P. Sakmar, Irene Coin
Methods rooted in chemical biology have contributed significantly to studies of integral membrane proteins. One recent key approach has been the application of genetic code expansion (GCE), which enables the site-specific incorporation of noncanonical amino acids (ncAAs) with defined chemical properties into proteins. Efficient GCE is challenging, especially for membrane proteins, which have specialized biogenesis and cell trafficking machinery and tend to be expressed at low levels in cell membranes. Many eukaryotic membrane proteins cannot be expressed functionally in E. coli and are most effectively studied in mammalian cell culture systems. Recent advances have facilitated broader applications of GCE for studies of membrane proteins. First, AARS/tRNA pairs have been engineered to function efficiently in mammalian cells. Second, bioorthogonal chemical reactions, including cell-friendly copper-free “click” chemistry, have enabled linkage of small-molecule probes such as fluorophores to membrane proteins in live cells. Finally, in concert with advances in GCE methodology, the variety of available ncAAs has increased dramatically, thus enabling the investigation of protein structure and dynamics by multidisciplinary biochemical and biophysical approaches. These developments are reviewed in the historical framework of the development of GCE technology with a focus on applications to studies of membrane proteins.
植根于化学生物学的方法对整体膜蛋白的研究做出了巨大贡献。最近的一个关键方法是应用遗传密码扩增(GCE),它能将具有特定化学性质的非典型氨基酸(ncAAs)特异性地加入蛋白质中。高效的 GCE 具有挑战性,尤其是对膜蛋白而言,因为膜蛋白具有专门的生物生成和细胞转运机制,而且在细胞膜中的表达量往往很低。许多真核生物膜蛋白无法在大肠杆菌中进行功能表达,因此在哺乳动物细胞培养系统中进行研究最为有效。最近的进展促进了 GCE 在膜蛋白研究中的更广泛应用。首先,AARS/tRNA 对已被设计成能在哺乳动物细胞中有效发挥作用。其次,生物正交化学反应,包括对细胞友好的无铜 "点击 "化学反应,实现了小分子探针(如荧光团)与活细胞中膜蛋白的连接。最后,随着 GCE 方法学的进步,可用 ncAAs 的种类也急剧增加,从而能够通过多学科生物化学和生物物理方法研究蛋白质的结构和动力学。本文在 GCE 技术发展的历史框架下回顾了这些发展,重点介绍了在膜蛋白研究中的应用。
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引用次数: 0
Dipolar Recoupling in Rotating Solids 旋转固体中的双极再耦合
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-06 DOI: 10.1021/acs.chemrev.4c00373
Vladimir Ladizhansky, Ravi Shankar Palani, Michael Mardini, Robert G. Griffin
Magic angle spinning (MAS) nuclear magnetic resonance (NMR) has evolved significantly over the past three decades and established itself as a vital tool for the structural analysis of biological macromolecules and materials. This review delves into the development and application of dipolar recoupling techniques in MAS NMR, which are crucial for obtaining detailed structural and dynamic information. We discuss a variety of homonuclear and heteronuclear recoupling methods which are essential for measuring spatial restraints and explain in detail the spin dynamics that these sequences generate. We also explore recent developments in high spinning frequency MAS, proton detection, and dynamic nuclear polarization, underscoring their importance in advancing biomolecular NMR. Our aim is to provide a comprehensive account of contemporary dipolar recoupling methods, their principles, and their application to structural biology and materials, highlighting significant contributions to the field and emerging techniques that enhance resolution and sensitivity in MAS NMR spectroscopy.
魔角旋转核磁共振(MAS)在过去三十年中取得了长足发展,已成为生物大分子和材料结构分析的重要工具。本综述深入探讨了 MAS NMR 中双极性再偶联技术的发展和应用,这些技术对于获取详细的结构和动态信息至关重要。我们讨论了对测量空间限制至关重要的各种同核和异核再偶联方法,并详细解释了这些序列产生的自旋动力学。我们还探讨了高旋转频率 MAS、质子检测和动态核极化的最新发展,强调了它们在推动生物分子核磁共振方面的重要性。我们的目标是全面介绍当代偶极再偶联方法、其原理及其在结构生物学和材料中的应用,突出强调对该领域的重大贡献以及可提高 MAS NMR 光谱分辨率和灵敏度的新兴技术。
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引用次数: 0
Nanomaterials for Flexible Neuromorphics 用于柔性神经形态学的纳米材料
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-05 DOI: 10.1021/acs.chemrev.4c00369
Guanglong Ding, Hang Li, JiYu Zhao, Kui Zhou, Yongbiao Zhai, Ziyu Lv, Meng Zhang, Yan Yan, Su-Ting Han, Ye Zhou
The quest to imbue machines with intelligence akin to that of humans, through the development of adaptable neuromorphic devices and the creation of artificial neural systems, has long stood as a pivotal goal in both scientific inquiry and industrial advancement. Recent advancements in flexible neuromorphic electronics primarily rely on nanomaterials and polymers owing to their inherent uniformity, superior mechanical and electrical capabilities, and versatile functionalities. However, this field is still in its nascent stage, necessitating continuous efforts in materials innovation and device/system design. Therefore, it is imperative to conduct an extensive and comprehensive analysis to summarize current progress. This review highlights the advancements and applications of flexible neuromorphics, involving inorganic nanomaterials (zero-/one-/two-dimensional, and heterostructure), carbon-based nanomaterials such as carbon nanotubes (CNTs) and graphene, and polymers. Additionally, a comprehensive comparison and summary of the structural compositions, design strategies, key performance, and significant applications of these devices are provided. Furthermore, the challenges and future directions pertaining to materials/devices/systems associated with flexible neuromorphics are also addressed. The aim of this review is to shed light on the rapidly growing field of flexible neuromorphics, attract experts from diverse disciplines (e.g., electronics, materials science, neurobiology), and foster further innovation for its accelerated development.
长期以来,通过开发适应性强的神经形态设备和创建人工神经系统,赋予机器与人类类似的智能,一直是科学探索和工业进步的关键目标。柔性神经形态电子学的最新进展主要依赖于纳米材料和聚合物,因为它们具有固有的均匀性、卓越的机械和电气性能以及多功能性。然而,这一领域仍处于起步阶段,需要在材料创新和设备/系统设计方面不断努力。因此,必须进行广泛而全面的分析,总结当前的进展。本综述重点介绍了柔性神经形态学的进展和应用,涉及无机纳米材料(零/一/二维和异质结构)、碳基纳米材料(如碳纳米管和石墨烯)以及聚合物。此外,还对这些器件的结构组成、设计策略、主要性能和重要应用进行了全面的比较和总结。此外,还探讨了与柔性神经形态相关的材料/器件/系统所面临的挑战和未来发展方向。本综述旨在阐明快速发展的柔性神经形态学领域,吸引来自不同学科(如电子学、材料科学、神经生物学)的专家,并促进进一步创新,以加速其发展。
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引用次数: 0
Technologies for Targeted RNA Degradation and Induced RNA Decay 靶向 RNA 降解和诱导 RNA 降解技术
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-11-05 DOI: 10.1021/acs.chemrev.4c00472
Sigitas Mikutis, Gonçalo J. L. Bernardes
The vast majority of the human genome codes for RNA, but RNA-targeting therapeutics account for a small fraction of approved drugs. As such, there is great incentive to improve old and develop new approaches to RNA targeting. For many RNA targeting modalities, just binding is not sufficient to exert a therapeutic effect; thus, targeted RNA degradation and induced decay emerged as powerful approaches with a pronounced biological effect. This review covers the origins and advanced use cases of targeted RNA degrader technologies grouped by the nature of the targeting modality as well as by the mode of degradation. It covers both well-established methods and clinically successful platforms such as RNA interference, as well as emerging approaches such as recruitment of RNA quality control machinery, CRISPR, and direct targeted RNA degradation. We also share our thoughts on the biggest hurdles in this field, as well as possible ways to overcome them.
人类基因组的绝大部分都是 RNA 编码,但 RNA 靶向疗法只占获批药物的一小部分。因此,改进旧的 RNA 靶向方法和开发新的 RNA 靶向方法有很大的动力。对于许多 RNA 靶向模式来说,仅仅结合还不足以产生治疗效果;因此,靶向 RNA 降解和诱导衰变成为具有显著生物效应的强大方法。本综述涵盖了靶向 RNA 降解技术的起源和先进应用案例,并按照靶向方式的性质和降解模式进行了分组。它既包括成熟的方法和临床上成功的平台(如 RNA 干扰),也包括新兴的方法(如招募 RNA 质量控制机制、CRISPR 和直接靶向 RNA 降解)。我们还分享了我们对这一领域最大障碍的看法,以及克服这些障碍的可能方法。
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引用次数: 0
Electrochemical and Non-Electrochemical Pathways in the Electrocatalytic Oxidation of Monosaccharides and Related Sugar Alcohols into Valuable Products 将单糖和相关糖醇电催化氧化成有价值产品的电化学和非电化学途径
IF 62.1 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-10-31 DOI: 10.1021/acs.chemrev.4c00261
Matthijs P. J. M. van der Ham, Jordi Creus, Johannes H. Bitter, Marc T. M. Koper, Paolo P. Pescarmona
In this contribution, we review the electrochemical upgrading of saccharides (e.g., glucose) and sugar alcohols (e.g., glycerol) on metal and metal-oxide electrodes by drawing conclusions on common trends and differences between these two important classes of biobased compounds. For this purpose, we critically review the literature on the electrocatalytic oxidation of saccharides and sugar alcohols, seeking trends in the effect of reaction conditions and electrocatalyst design on the selectivity for the oxidation of specific functional groups toward value-added compounds. Importantly, we highlight and discuss the competition between electrochemical and non-electrochemical pathways. This is a crucial and yet often neglected aspect that should be taken into account and optimized for achieving the efficient electrocatalytic conversion of monosaccharides and related sugar alcohols into valuable products, which is a target of growing interest in the context of the electrification of the chemical industry combined with the utilization of renewable feedstock.
在这篇论文中,我们回顾了糖类(如葡萄糖)和糖醇(如甘油)在金属和金属氧化物电极上的电化学升级,总结了这两类重要生物基化合物之间的共同趋势和差异。为此,我们对有关糖类和糖醇电催化氧化的文献进行了批判性回顾,寻找反应条件和电催化剂设计对特定官能团氧化为高附加值化合物的选择性的影响趋势。重要的是,我们强调并讨论了电化学和非电化学途径之间的竞争。在化学工业电气化与可再生原料利用相结合的背景下,这是一个日益受到关注的目标。
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引用次数: 0
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