Israel Journal of Chemistry最新文献

{"title":"Scanning Tunnelling Microscopy Studies of Tsai‐Type Quasicrystal Approximants","authors":"Sam Coates, Dominic Burnie, Hem Raj Sharma, Ronan McGrath","doi":"10.1002/ijch.202300116","DOIUrl":"https://doi.org/10.1002/ijch.202300116","url":null,"abstract":"Abstract We review scanning tunnelling microscopy (STM) studies of the surfaces of periodic Tsai‐type approximants. Although they are useful analogues to the Tsai‐type quasicrystals, the surfaces of these periodic approximants behave in subtly different and often more complex ways when compared to their quasiperiodic cousins. We present a summary of STM studies conducted upon Tsai‐type approximants; we discuss the various differences and similarities between phases and surface directions, and compare these to the surfaces of the related quasicrystalline phases. We also present open questions which have been raised by these studies, and offer potential routes to answer them.","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"35 2","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135973475","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quasicrystal Structure Prediction: A Review","authors":"Michael Widom, Marek Mihalkovič","doi":"10.1002/ijch.202300122","DOIUrl":"https://doi.org/10.1002/ijch.202300122","url":null,"abstract":"Abstract Predicting quasicrystal structures is a multifaceted problem that can involve predicting a previously unknown phase, predicting the structure of an experimentally observed phase, or predicting the thermodynamic stability of a given structure. We survey the history and current state of these prediction efforts with a focus on methods that have improved our understanding of the structure and stability of known metallic quasicrystal phases. Advances in the structural modeling of quasicrystals, along with first principles total energy calculation and statistical mechanical methods that enable the calculation of quasicrystal thermodynamic stability, are illustrated by means of cited examples of recent work.","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"15 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136079036","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Quantitative Sequencing Method for 5-Formylcytosine in RNA","authors":"Ruitu Lyu,&nbsp;Kinga Pajdzik,&nbsp;Hui-Lung Sun,&nbsp;Linda Zhang,&nbsp;Li-Sheng Zhang,&nbsp;Tong Wu,&nbsp;Lei Yang,&nbsp;Tao Pan,&nbsp;Chuan He,&nbsp;Qing Dai","doi":"10.1002/ijch.202300111","DOIUrl":"10.1002/ijch.202300111","url":null,"abstract":"<p>5-Formylcytosine (f⁵C) modification is present in human mitochondrial methionine tRNA (mt-tRNA^Met) and cytosolic leucine tRNA (ct-tRNA^Leu), with their formation mediated by NSUN3 and ALKBH1. f⁵C has also been detected in yeast mRNA and human tRNA, but its transcriptome-wide distribution in mammals has not been studied. Here we report f⁵C-seq, a quantitative sequencing method to map f⁵C transcriptome-wide in HeLa and mouse embryonic stem cells (mESCs). We show that f⁵C in RNA can be reduced to dihydrouracil (DHU) by pic-borane, and DHU can be exclusively read as T during reverse transcription (RT) reaction, allowing the detection and quantification of f⁵C sites by a unique C-to-T mutation signature. We validated f⁵C-seq by identifying and quantifying the two known f⁵C sites in tRNA, in which the f⁵C modification fractions dropped significantly in ALKBH1-depleted cells. By applying f⁵C-seq to chromatin-associated RNA (caRNA), we identified several highly modified f⁵C sites in HeLa and mouse embryonic stem cells (mESC).</p>","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"64 3-4","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ijch.202300111","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136079035","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Cellular Environment Guides Self‐Assembly and Structural Conformations of Microtubule‐Associated Protein Tau (MAPT)","authors":"Kelly M. Montgomery, Avi J. Samelson, Jason E. Gestwicki","doi":"10.1002/ijch.202300104","DOIUrl":"https://doi.org/10.1002/ijch.202300104","url":null,"abstract":"Abstract In neurodegenerative tauopathies, such as Alzheimer's disease (AD), microtubule‐associated protein tau (MAPT/tau) transitions from a soluble form to insoluble, filamentous lesions inside affected neurons. During this process, tau adopts a range of physical configurations: from misfolded monomers to higher‐order oligomers and fibrils. Tau aggregation is also associated with changes in post‐translational modifications (PTMs), such as ubiquitination, oxidation, glycation, hyper‐phosphorylation and acetylation, which collectively produce an impressive range of possible tau proteoforms. Many of these tau proteoforms are highly cationic and unlikely to self‐assemble without neutralization of their charges. Indeed, tau fibrils from patients contain anionic biomacromolecules and bound proteins, suggesting that cytosolic components contribute to fibrilligenesis. Here, we review what is known about how the cytosol impacts tau's aggregation pathways. We also speculate that the composition of each brain region ( e. g ., redox state, tau proteoforms, levels of permissive polyanions, etc .) might play an active role in shaping the structure of the resulting tau fibrils. Although much remains to be discovered, a greater understanding of the role of the cytosol on tau self‐assembly might lead to identification of new therapeutic targets.","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"52 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135146185","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Surface Reactivity of the Au‐Si‐Ho Quasicrystalline 1/1 Approximant","authors":"Wilfried Bajoun Mbajoun, Yu‐Chin Huang, Girma Hailu Gebresenbut, Cesar Pay Gómez, Vincent Fournée, Julian Ledieu","doi":"10.1002/ijch.202300118","DOIUrl":"https://doi.org/10.1002/ijch.202300118","url":null,"abstract":"Abstract The oxidation of the (100) surface of Au‐Si‐Ho quasicrystalline approximant was studied using low‐energy electron diffraction and X‐ray photoelectron spectroscopy. The combination of these two techniques provides evidence for a Ho and Si surface segregation induced by O 2 adsorption, resulting in the loss of surface long‐range order.","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"17 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135590457","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Π-acid catalysis – challenges, advances, and opportunities","authors":"Dr. Yuri Tulchinsky,&nbsp;Prof. Ehud Keinan","doi":"10.1002/ijch.202300132","DOIUrl":"https://doi.org/10.1002/ijch.202300132","url":null,"abstract":"&lt;p&gt;Π-acid catalysis is one of the last two decades′ most exciting developments in synthetic organic chemistry. Because of the mild conditions employed and high functional group tolerance, π-acid catalysis became a tool of choice for the selective activation of double and triple C−C bonds at the late stages of multistep syntheses. At the same time, owing to the simplicity of the reaction setup, it also provides an easy and atom-economic route towards a broad array of valuable precursors.&lt;/p&gt;&lt;p&gt;Traditionally, the field of π-acid catalysis has relied on complexes of Au(I) and Pt(II). These electron-rich cations are well-suited for the carbophilic activation of C−C multiple bonds. On the one hand, they are highly polarizable and hence can efficiently interact with the &lt;i&gt;η&lt;/i&gt;&lt;sub&gt;2&lt;/sub&gt;-coordinated “soft” alkene or alkyne ligands. Yet, on the other hand, they are sufficiently electrophilic to render those ligands susceptible to nucleophilic attacks. While gold and platinum still maintain their privileged position in π-acid catalysis, the growing list of metals employable as π-acid catalysts now includes not only other noble elements (Pd, Rh, etc.), but also some earth-abundant ones, such as Cu, Zn, and even Al, providing cheaper alternatives for the precious metals.&lt;/p&gt;&lt;p&gt;The choice of ancillary ligands plays a crucial role in imparting an electrophilic character on metal centers for use as π-acid catalysts. New strong electron-withdrawing ancillary ligands were developed in search of better catalysts. A possible way to achieve this goal is by increasing the π-acidity of moderately π-acidic ligands, such as tertiary phosphines and N-heterocyclic carbenes (NHCs). In the present issue, two contributions - a communication by Manuel Alcarazo and a research article by Fumitoshi Shibahara - represent this endeavor.&lt;/p&gt;&lt;p&gt;Prof. Alcarazo is renowned for introducing the α-cationic phosphines and arsines as a novel class of highly π-acidic ancillary ligands for catalysis, mostly in Au(I) and Pt(II) systems. In recent years, his group has been active in developing asymmetric π-acid catalysis with chiral α-cationic phosphinates. A short communication presented in this issue describes the application of these unusual ancillary ligands for a highly enantioselective one-pot preparation of chiral &lt;i&gt;C&lt;sub&gt;2&lt;/sub&gt;&lt;/i&gt;-symmetric [5]helicenes with two peripheral axial stereogenic centers. Asymmetric π-acid catalysis by Au(I) and Au(III) complexes is thoroughly addressed in a comprehensive review by Nitin Patil. Surprisingly, despite the prominent role of Au in π-acid catalysis in general, chiral gold catalysts have received much less attention. Prof. Patil's review aims at filling in this lacune and provides a retrospect of the significant developments in this area during the last 15 years.&lt;/p&gt;&lt;p&gt;A research article by Prof. Shibahara presents a different kind of π-acidic ancillary ligands. His group reports on a novel series of fused NHC ligands with electron-withdra","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"63 9","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ijch.202300132","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50130822","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Recent Applications of Paired Electrolysis in Organic Synthesis","authors":"Ke-Jin Jiao,&nbsp;Xiao-Tong Gao,&nbsp;Cong Ma,&nbsp;Ping Fang,&nbsp;Tian-Sheng Mei","doi":"10.1002/ijch.202300085","DOIUrl":"10.1002/ijch.202300085","url":null,"abstract":"<p>Recent years have witnessed a renaissance of organic electrochemistry since the cheap, safe, sustainable electron could be employed as a traceless redox agent to facilitate redox conversions. Additionally, divergent selectivity could be achieved by tuning the potential or current of the electrochemical reaction. Compared to electrooxidation or electroreduction reactions, paired electrolysis represents a more practical and energy-efficient strategy that delivers the products by making use of both anodic and cathodic reactions simultaneously. This mini-review summarized the breakthroughs and recent advances in this fascinating field and mainly is divided into three parts: parallel, sequential, and convergent paired electrolysis.</p>","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"64 1-2","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135536604","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Cover Picture: (Isr. J. Chem. 9/2023)","authors":"","doi":"10.1002/ijch.202380901","DOIUrl":"https://doi.org/10.1002/ijch.202380901","url":null,"abstract":"<p>The cover picture illustrates symbolically the critical step in π-acid catalysis as a bullfighting scene: a metal catalyst (the toreador) binds an alkyne and activates it for an attack by a nucleophile (the bull). Cover image by Dr. Igor Armiach.\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure>\u0000 </p>","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"63 9","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ijch.202380901","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50155092","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Electrochemical C7-Indole Alkenylation via Rhodium Catalysis","authors":"Agnese Zangarelli,&nbsp;Binbin Yuan,&nbsp;Prof. Dr. Lutz Ackermann","doi":"10.1002/ijch.202300103","DOIUrl":"10.1002/ijch.202300103","url":null,"abstract":"<p>Indole derivatives are fundamental structural units in many bioactive compounds and molecular materials. The site-selective C7-functionalization of these moieties has been proven to be extremely challenging due to the inherent reactivity of the C2- and C3-positions. Herein, we report the first electro-C7-alkenylation of indoles. This novel and sustainable methodology provides highly exclusive access to the C7-position devoid of often toxic and expensive chemical oxidants. Moreover, an array of substrates was successfully alkenylated at the C7-position, and versatile product diversification was achieved.</p>","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"64 1-2","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ijch.202300103","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135816172","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Chemoenzymatic Tagging of Tn/TF/STF Antigens in Living Systems","authors":"Yi Yang,&nbsp;Mingkuan Chen,&nbsp;Mengyao Wu,&nbsp;Senlian Hong,&nbsp;Bing Gao,&nbsp;Yonghui Liu,&nbsp;Chenhua Yu,&nbsp;Travis S. Young,&nbsp;Digantkumar Gopaldas Chapla,&nbsp;Jeong-Yeh Yang,&nbsp;John R. Cappiello,&nbsp;Jie P. Li,&nbsp;K. Barry Sharpless,&nbsp;Kelley W. Moremen,&nbsp;Peng Wu","doi":"10.1002/ijch.202300081","DOIUrl":"10.1002/ijch.202300081","url":null,"abstract":"<p>Truncated mucin-type O-glycans, such as Tn-associated antigens, are aberrantly expressed biomarkers of cancer, but remain challenging to target. Reactive antibodies to these antigens either lack high affinity or are prone to antigen escape. Here, we have developed a robust chemoenzymatic strategy for the global labeling of Tn-associated antigens, i. e. Tn (GalNAcα-O-Ser/Thr), Thomsen-Friedenreich (Galβ1-3GalNAcα-O-Ser/Thr, TF) and STF (Neu5Acα2-3Galβ1-3GalNAcα-O-Ser/Thr, STF) antigens, in human whole blood with high efficiency and selectivity. This method relies on the use of the O-glycan sialyltransferase ST6GalNAc1 to transfer a sialic acid-functionalized adaptor to the GalNAc residue of these antigens. By tagging, the adaptor functionalized antigens can be easily targeted by customized strategies such as, but not limited to, chimeric antigen receptor T-Cells (CAR-T). We expect this tagging system to find broad applications in cancer diagnostics and targeting in combination with established strategies.</p>","PeriodicalId":14686,"journal":{"name":"Israel Journal of Chemistry","volume":"63 10-11","pages":""},"PeriodicalIF":3.2,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ijch.202300081","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135395547","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}