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Single-electron transfer between sulfonium and tryptophan enables site-selective photo crosslinking of methyllysine reader proteins 锍和色氨酸之间的单电子转移实现了甲基赖氨酸阅读器蛋白质的位点选择性光交联
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-30 DOI: 10.1038/s41557-024-01577-y
Feng Feng, Yingxiao Gao, Qun Zhao, Ting Luo, Qingyun Yang, Nan Zhao, Yihang Xiao, Yusong Han, Jinheng Pan, Shan Feng, Lihua Zhang, Mingxuan Wu
The identification of readers, an important class of proteins that recognize modified residues at specific sites, is essential to uncover the biological roles of post-translational modifications. Photoreactive crosslinkers are powerful tools for investigating readers. However, existing methods usually employ synthetically challenging photoreactive warheads, and their high-energy intermediates generated upon irradiation, such as nitrene and carbene, may cause substantial non-specific crosslinking. Here we report dimethylsulfonium as a methyllysine mimic that binds to specific readers and subsequently crosslinks to a conserved tryptophan inside the binding pocket through single-electron transfer under ultraviolet irradiation. The crosslinking relies on a protein-templated σ–π electron donor–acceptor interaction between sulfonium and indole, ensuring excellent site selectivity for tryptophan in the active site and orthogonality to other methyllysine readers. This method could escalate the discovery of methyllysine readers from complex cell samples. Furthermore, this photo crosslinking strategy could be extended to develop other types of microenvironment-dependent conjugations to site-specific tryptophan. Tryptophan plays important biological roles in aromatic cages, such as methyllysine recognition, but the development of site-selective crosslinking to tryptophan is challenging. Now sulfonium can be used as a methyllysine mimic that binds to reader proteins and crosslinks tryptophan inside a pocket through single-electron transfer. This strategy enables the identification of methyllysine readers from the proteome.
阅读器是一类能识别特定位点修饰残基的重要蛋白质,识别阅读器对于揭示翻译后修饰的生物学作用至关重要。光活性交联剂是研究阅读器的有力工具。然而,现有的方法通常使用合成上具有挑战性的光活性弹头,而它们在辐照时产生的高能中间体(如腈和碳化物)可能会导致大量非特异性交联。在这里,我们报告了二甲基锍作为一种甲基赖氨酸模拟物,它能与特定读者结合,随后在紫外线照射下通过单电子转移与结合口袋内的保守色氨酸交联。这种交联依赖于锍和吲哚之间由蛋白质引发的σ-π电子供体-受体相互作用,确保了对活性位点中色氨酸的极佳位点选择性以及与其他甲赖氨酸阅读器的正交性。这种方法可促进从复杂细胞样本中发现甲赖氨酸读取器。此外,这种光交联策略还可扩展到开发其他类型的微环境依赖性色氨酸位点共轭物。
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引用次数: 0
Using dimethylsulfonium to identify readers of methylation 利用二甲基锍鉴定甲基化读者
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-30 DOI: 10.1038/s41557-024-01582-1
Xiang Li, Xiang David Li
Decoding a post-translational modification requires the identification of its ‘reader’ proteins. Now a method can covalently trap the readers of lysine methylation using dimethylsulfonium as a methyllysine-mimicking ‘warhead’ to crosslink the tryptophan residues inside the binding pocket.
解码翻译后修饰需要识别其 "阅读 "蛋白。现在有一种方法可以共价捕获赖氨酸甲基化的 "阅读者",使用二甲基锍作为模拟甲基赖氨酸的 "弹头",交联结合袋内的色氨酸残基。
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引用次数: 0
Direct nanoscopic imaging of the hydrated nanoparticle–ligand interface 水合纳米粒子-配体界面的直接纳米成像。
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-25 DOI: 10.1038/s41557-024-01583-0
Taylor J. Woehl, Damien Alloyeau
The ligand–nanoparticle interface helps to control nanoparticle synthesis and functional properties, but determining its structure and dynamics is challenging owing to the lack of high-resolution direct imaging methods. Now, liquid-phase transmission electron microscopy has uncovered the micellar packing and surface adsorption dynamics of a surfactant ligand on gold nanorods.
配体-纳米粒子界面有助于控制纳米粒子的合成和功能特性,但由于缺乏高分辨率的直接成像方法,确定其结构和动态具有挑战性。现在,液相透射电子显微镜揭示了金纳米棒上表面活性剂配体的胶束堆积和表面吸附动力学。
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引用次数: 0
Magnetic fields reveal signatures of triplet-pair multi-exciton photoluminescence in singlet fission. 磁场揭示了单裂变中三重对多激子光致发光的特征。
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-25 DOI: 10.1038/s41557-024-01591-0
Jiale Feng, Parisa Hosseinabadi, Damon M de Clercq, Ben P Carwithen, Michael P Nielsen, Matthew W Brett, Shyamal K K Prasad, Adam A D Farahani, Hsiu L Li, Samuel N Sanders, Jonathon E Beves, N J Ekins-Daukes, Jared H Cole, Pall Thordarson, David M Huang, Murad J Y Tayebjee, Timothy W Schmidt

The photophysical processes of singlet fission and triplet fusion have numerous emerging applications. They involve the separation of a photo-generated singlet exciton into two dark triplet excitons and the fusion of two dark triplet excitons into an emissive singlet exciton, respectively. The role of the excimer state and the nature of the triplet-pair state in these processes have been a matter of contention. Here we analyse the room temperature time-resolved emission of a neat liquid singlet fission chromophore and show that it exhibits three spectral components: two that correspond to the bright singlet and excimer states and a third component that becomes more prominent during triplet fusion. This spectrum is enhanced by magnetic fields, confirming its origins in the recombination of weakly coupled triplet pairs. It is thus attributed to a strongly coupled triplet pair state. These observations unite the view that there is an emissive intermediate in singlet fission and triplet fusion, distinct from the broad, unstructured excimer emission.

单重子裂变和三重子聚变的光物理过程有许多新兴应用。它们分别是将光生成的单重激子分离成两个暗三重激子,以及将两个暗三重激子融合成一个发射型单重激子。在这些过程中,准分子态的作用和三重对态的性质一直存在争议。在这里,我们分析了一种纯液体单裂变发色团的室温时间分辨发射,结果表明它呈现出三种光谱成分:两种成分对应于明亮的单子态和准分子态,第三种成分在三重对融合过程中变得更加突出。该光谱在磁场作用下会增强,这证实了它起源于弱耦合三重态对的重组。因此,它被归因于强耦合三重对状态。这些观察结果统一了一种观点,即在单重裂变和三重聚变过程中存在一个发射中间体,它有别于宽泛、无结构的准分子发射。
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引用次数: 0
Phosphorus-mediated hydrogenation catalysis 磷介导的氢化催化。
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-24 DOI: 10.1038/s41557-024-01588-9
Josh Abbenseth
Hydrogenation catalysis is commonly associated with (noble) transition metals that undergo oxidative addition of H2 and subsequently transfer hydrogen atoms to unsaturated substrates. Now, a geometrically constrained phosphenium cation can facilitate both of these challenging transformations.
氢化催化通常与(惰性)过渡金属有关,这些金属可进行 H2 的氧化加成,然后将氢原子转移到不饱和底物上。现在,一种受几何约束的膦阳离子可以促进这两种具有挑战性的转化。
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引用次数: 0
Light strikes gold to purify water 光打金,净化水。
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-24 DOI: 10.1038/s41557-024-01581-2
Zhipeng Yu, Lifeng Liu
Hydroxyl radicals (·OH) are important reactive oxygen species in environmental chemistry. The most efficient way to generate them is through a single-electron water-oxidation step, but this light-driven process is inefficient over inorganic semiconductor materials. Now, a judiciously designed polymeric carbon nitride has demonstrated high photocatalytic efficiency.
羟基自由基(-OH)是环境化学中重要的活性氧物种。产生羟自由基的最有效方法是通过单电子水氧化步骤,但这种光驱动过程在无机半导体材料上效率很低。现在,一种经过合理设计的聚合物氮化碳已经证明具有很高的光催化效率。
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引用次数: 0
A template for artificial life 人工生命的模板
IF 19.2 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-23 DOI: 10.1038/s41557-024-01589-8
Rahul Dev Mukhopadhyay
Selection rules play an important role in Darwinian evolution. Now, it has been shown that selective templation enables the purification of oligomer libraries in a coacervate model, and that the oligomer library can reversibly affect the coacervates’ fusion behaviour.
选择规则在达尔文进化论中扮演着重要角色。现在,研究表明,选择性模板可在凝聚态模型中纯化低聚物库,而且低聚物库能可逆地影响凝聚态的融合行为。
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引用次数: 0
Protein semisynthesis reveals plasticity in HECT E3 ubiquitin ligase mechanisms 蛋白质半合成揭示了 HECT E3 泛素连接酶机制的可塑性
IF 21.8 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-19 DOI: 10.1038/s41557-024-01576-z
Hanjie Jiang, Bryant D. Miller, Thibault Viennet, Hyojeon Kim, Kwangwoon Lee, Haribabu Arthanari, Philip A. Cole

Lys ubiquitination is catalysed by E3 ubiquitin ligases and is central to the regulation of protein stability and cell signalling in normal and disease states. There are gaps in our understanding of E3 mechanisms, and here we use protein semisynthesis, chemical rescue, microscale thermophoresis and other biochemical approaches to dissect the role of catalytic base/acid function and conformational interconversion in HECT-domain E3 catalysis. We demonstrate that there is plasticity in the use of the terminal side chain or backbone carboxylate for proton transfer in HECT E3 ubiquitin ligase reactions, with yeast Rsp5 orthologues appearing to be possible evolutionary intermediates. We also show that the HECT-domain ubiquitin covalent intermediate appears to eject the E2 conjugating enzyme, promoting catalytic turnover. These findings provide key mechanistic insights into how protein ubiquitination occurs and provide a framework for understanding E3 functions and regulation.

赖氨酸泛素化由 E3 泛素连接酶催化,是调节正常和疾病状态下蛋白质稳定性和细胞信号的核心。我们对 E3 机制的认识还存在差距,在此,我们使用蛋白质半合成、化学救援、微尺度热泳和其他生化方法来剖析催化碱基/酸功能和构象相互转换在 HECT 域 E3 催化中的作用。我们证明,在 HECT E3 泛素连接酶反应中,利用末端侧链或骨架羧酸盐进行质子转移具有可塑性,酵母 Rsp5 同源物似乎是可能的进化中间体。我们还发现,HECT-domain 泛素共价中间体似乎能弹射出 E2 连接酶,促进催化周转。这些发现为了解蛋白质泛素化的发生提供了关键的机理见解,并为了解 E3 的功能和调控提供了一个框架。
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引用次数: 0
An evolved artificial radical cyclase enables the construction of bicyclic terpenoid scaffolds via an H-atom transfer pathway 进化的人工自由基环化酶可通过 H 原子转移途径构建双环萜类支架
IF 21.8 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-19 DOI: 10.1038/s41557-024-01562-5
Dongping Chen, Xiang Zhang, Anastassia Andreevna Vorobieva, Ryo Tachibana, Alina Stein, Roman P. Jakob, Zhi Zou, Damian Alexander Graf, Ang Li, Timm Maier, Bruno E. Correia, Thomas R. Ward

While natural terpenoid cyclases generate complex terpenoid structures via cationic mechanisms, alternative radical cyclization pathways are underexplored. The metal-catalysed H-atom transfer reaction (M-HAT) offers an attractive means for hydrofunctionalizing olefins, providing access to terpenoid-like structures. Artificial metalloenzymes offer a promising strategy for introducing M-HAT reactivity into a protein scaffold. Here we report our efforts towards engineering an artificial radical cyclase (ARCase), resulting from anchoring a biotinylated [Co(Schiff-base)] cofactor within an engineered chimeric streptavidin. After two rounds of directed evolution, a double mutant catalyses a radical cyclization to afford bicyclic products with a cis-5-6-fused ring structure and up to 97% enantiomeric excess. The involvement of a histidine ligation to the Co cofactor is confirmed by crystallography. A time course experiment reveals a cascade reaction catalysed by the ARCase, combining a radical cyclization with a conjugate reduction. The ARCase exhibits tolerance towards variations in the dienone substrate, highlighting its potential to access terpenoid scaffolds.

天然萜类环化酶通过阳离子机制生成复杂的萜类结构,但对其他自由基环化途径的探索还不够。金属催化的 H 原子转移反应(M-HAT)为烯烃的氢官能化提供了一种极具吸引力的方法,从而提供了获得类萜结构的途径。人工金属酶为将 M-HAT 反应性引入蛋白质支架提供了一种前景广阔的策略。在此,我们报告了通过将生物素化的[Co(希夫碱)]辅助因子锚定在工程化的嵌合链霉亲和素中,我们在工程化人工自由基环化酶(ARCase)方面所做的努力。经过两轮定向进化后,一个双突变体催化了自由基环化,产生了具有顺式-5-6-融合环结构的双环产物,对映体过量率高达 97%。晶体学研究证实了组氨酸与 Co 辅助因子的连接。时程实验揭示了 ARCase 催化的级联反应,它将自由基环化与共轭还原结合在一起。ARCase 对二烯酮底物的变化表现出耐受性,突显了其获取萜类支架的潜力。
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引用次数: 0
Collisional alignment and molecular rotation control the chemi-ionization of individual conformers of hydroquinone with metastable neon 碰撞排列和分子旋转控制着对苯二酚单个构象与可迁移氖的化学电离
IF 21.8 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY Pub Date : 2024-07-19 DOI: 10.1038/s41557-024-01590-1
L. Ploenes, P. Straňák, A. Mishra, X. Liu, J. Pérez-Ríos, S. Willitsch

The relationship between the shape of a molecule and its chemical reactivity is a central tenet in chemistry. However, the influence of the molecular geometry on reactivity can be subtle and result from several opposing effects. Here, using a crossed-molecular-beam experiment in which individual rotational quantum states of specific conformers of a molecule are separated, we study the chemi-ionization reaction of hydroquinone with metastable neon atoms. We show that collision-induced alignment of the reaction partners caused by geometry-dependent long-range forces influences reaction pathways, which is, however, countered by molecular rotation. The present work provides insights into the conformation-specific stereodynamics of complex polyatomic systems and illustrates the capability of advanced molecule-control techniques to unravel these effects.

分子形状与其化学反应性之间的关系是化学的核心原理。然而,分子几何形状对反应性的影响可能是微妙的,并且是由几种相反的效应造成的。在这里,我们利用交叉分子束实验,分离了分子特定构象的各个旋转量子态,研究了对苯二酚与氖原子的化学电离反应。我们的研究表明,由几何长程力引起的反应伙伴碰撞诱导对齐会影响反应路径,但分子旋转会抵消这种影响。本研究揭示了复杂多原子体系的构象特异性立体动力学,并展示了先进的分子控制技术揭示这些效应的能力。
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引用次数: 0
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Nature chemistry
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