Applications of microscopy and small angle scattering techniques for the characterisation of supramolecular gels

• Connor R. M. MacDonald and
• Emily R. Draper

Beilstein J. Org. Chem. 2024, 20, 2608–2634, doi:10.3762/bjoc.20.220

• the mechanism of aggregation is further exemplified by Jones et al. [44]. It was shown that SEM could directly observe structural defects, resulting in the collapse of helically braided structures into their constituent fibrils which can interact with other fibres (Figure 10). The branching density

• , a potential mechanism could be identified which allows for the directed design of compounds which form mechanoresponsive aggregates, by indicating that a focus on increased fibre length is required. Information at longer length scales may be lost due to the limited q range provided by SANS

Efficient modification of peroxydisulfate oxidation reactions of nitrogen-containing heterocycles 6-methyluracil and pyridine

• Alfiya R. Gimadieva,
• Yuliya Z. Khazimullina,
• Aigiza A. Gilimkhanova and
• Akhat G. Mustafin

Beilstein J. Org. Chem. 2024, 20, 2599–2607, doi:10.3762/bjoc.20.219

• not increase the yield of pyridine 11 further (Table 2). Despite the numerous works in the field of peroxydisulfate oxidation, there is still no unified view of the reaction mechanism. Consequently, in [31], the assumption of an electrophilic substitution mechanism for the Elbs and Boyland–Sims

• the amino group is involved in the formation of an intermediate hydroxylamine derivative. Scheme 3 demonstrates a possible reaction mechanism using the example of the peroxydisulfate oxidation of MU and TMU catalyzed by PcM. It is proposed that PcM provides the necessary polarization of peroxydi(mono

• , 24% NaOH, 45 °C, PcM; b) (NH4)2S2O8, 24% NaOH, 45 °C, H2O2; c) HCl, 85–95 °C. Potential mechanism of peroxydisulfate oxidation of 6-methyluracil and 1,3,6-trimethyluracil. Yield dependence of 1,3,6-trimethyluracil-5-ammonium sulfate (5) on the amount and type of catalyst.a Yield dependence of

Synthesis and cytotoxicity studies of novel N-arylbenzo[h]quinazolin-2-amines

• Battini Veeraiah,
• Kishore Ramineni,
• Dabbugoddu Brahmaiah,
• Nangunoori Sampath Kumar,
• Hélène Solhi,
• Rémy Le Guevel,
• Chada Raji Reddy,
• Frédéric Justaud and
• René Grée

Beilstein J. Org. Chem. 2024, 20, 2592–2598, doi:10.3762/bjoc.20.218

• tested (25 μM). For these more potent molecules, further studies will be required to rationalize their activities and selectivities and explore their mechanism(s) of action. Conclusion In conclusion, we have designed a short and versatile strategy for the preparation of new N-arylbenzo[h]quinazoline-2

Base-promoted cascade recyclization of allomaltol derivatives containing an amide fragment into substituted 3-(1-hydroxyethylidene)tetronic acids

• Andrey N. Komogortsev,
• Constantine V. Milyutin and
• Boris V. Lichitsky

Beilstein J. Org. Chem. 2024, 20, 2585–2591, doi:10.3762/bjoc.20.217

• additional nitrogen atoms in compounds 4 leads to the fact that the other tautomeric form becomes more favorable. A proposed mechanism of the investigated recyclization is presented in Scheme 4. Initially, imidazolide A is formed via condensation of the starting amide 3 with CDI. Then, intermediate A

• : 3a (1 mmol), CDI (0.49 g, 3 mmol), DBU (0.17 g, 1.1 mmol), MeCN (7 mL). Proposed reaction mechanism for the formation of products 4. Synthesis of derivatization products 7 and 9. Optimization of the reaction conditionsa. Supporting Information Supporting Information File 141: General information

A review of recent advances in electrochemical and photoelectrochemical late-stage functionalization classified by anodic oxidation, cathodic reduction, and paired electrolysis

• Nian Li,
• Ruzal Sitdikov,
• Ajit Prabhakar Kale,
• Joost Steverlynck,
• Bo Li and
• Magnus Rueping

Beilstein J. Org. Chem. 2024, 20, 2500–2566, doi:10.3762/bjoc.20.214

• protocol for the installation of sulfonamide groups using commercially available SO2 and amines (Scheme 12) [20]. This method is highly appealing for industrial applications and LSF. The proposed mechanism begins with the anodic oxidation of the arene substrate. The resulting radical cation intermediate is

• aliphatic alcohols, benzyl alcohols are also suitable reagents. Numerous LSF examples and upscaling were demonstrated. The mechanism involves two anodic oxidations: first, the thiophenol is oxidized at the anode, forming a sulfur radical that attacks the isocyanide. The newly formed carbon radical is then

• , enabling further functionalization. The proposed mechanism involves radical–radical cross-coupling. The indole 1H-carboxamide generates a nitrogen-centered radical during anodic oxidation in the presence of a base, while the 1,3-dimethylindole derivative forms an indole radical cation. The radical–radical

Visible-light-mediated flow protocol for Achmatowicz rearrangement

• Joachyutharayalu Oja,
• Sanjeev Kumar and
• Srihari Pabbaraja

Beilstein J. Org. Chem. 2024, 20, 2493–2499, doi:10.3762/bjoc.20.213

• mechanism for the photochemically induced Achmatowicz rearrangement. Strategies for Achmatowicz rearrangement. Optimization of continuous flow Achmatowicz reactiona. Supporting Information Supporting Information File 133: Experimental section and NMR spectra. Supporting Information File 134: Video of the

Machine learning-guided strategies for reaction conditions design and optimization

• Lung-Yi Chen and
• Yi-Pei Li

Beilstein J. Org. Chem. 2024, 20, 2476–2492, doi:10.3762/bjoc.20.212

• mapping (AAM) is a process that establishes the correspondence between atoms before and after a reaction, reflecting the reaction mechanism. AAM-exempted methods [145][146][147][148][149][150] apply graph convolutions to each reactant and product molecule separately, and then use a pooling function or

HFIP as a versatile solvent in resorcin[n]arene synthesis

• Hormoz Khosravi,
• Valeria Stevens and
• Raúl Hernández Sánchez

Beilstein J. Org. Chem. 2024, 20, 2469–2475, doi:10.3762/bjoc.20.211

• limitation, we analyzed the mechanism underlying the formation of resorcin[n]arenes. The first step of the cyclization reaction is a hydroxyalkylation involving various cationic intermediates [69]. Hence, we hypothesized that any factor enhancing the rate of the first step by stabilizing carbocations will

• translated to the formation of other macrocycles as long as they share a similar reaction mechanism. (a) Control experiment testing deiodination of 2-iodoresorcinol. (b) Molecular crystal structure of chlorinated resorcin[4]arenes 1h and 1i, and carboxylic acid-containing 1s at 100 K. Thermal ellipsoids are

Photoredox-catalyzed intramolecular nucleophilic amidation of alkenes with β-lactams

• Valentina Giraldi,
• Giandomenico Magagnano,
• Daria Giacomini,
• Pier Giorgio Cozzi and
• Andrea Gualandi

Beilstein J. Org. Chem. 2024, 20, 2461–2468, doi:10.3762/bjoc.20.210

• cyclization occurred by producing trans-15 in 35% yield as the single diastereoisomer. For the reaction mechanism, we propose a mechanistic hypothesis according to the study by Nicewicz and Nguyen (Figure 3) [23]. The incorporation of electron-donating groups into the acridinium core, as in catalyst IV

• variants. A) Access of clavam derivatives by intramolecular photoredox reaction of alkenes. B) Clavulanic acid and its derivatives. C) Construction of the oxacepham scaffold by radical cyclization. Tentative mechanism for the photo-cyclization reaction. Preparation of alkenyl β-lactam derivatives for the

Hypervalent iodine-mediated cyclization of bishomoallylamides to prolinols

• Smaher E. Butt,
• Konrad Kepski,
• Jean-Marc Sotiropoulos and
• Wesley J. Moran

Beilstein J. Org. Chem. 2024, 20, 2455–2460, doi:10.3762/bjoc.20.209

• Pierre Angot, 64053 Pau Cedex 09, France School of Pharmacy and Bioengineering, Keele University, Keele, Staffordshire ST5 5JX, United Kingdom 10.3762/bjoc.20.209 Abstract A change in mechanism was observed in the hypervalent iodine-mediated cyclization of N-alkenylamides when the carbon chain between

• the alkene and the amide increased from two to three atoms. In the latter case, cyclization at the amide nitrogen to form the pyrrolidine ring was favored over cyclization at the amide oxygen. A DFT study was undertaken to rationalize the change in mechanism of this cyclization process. In addition

• , reaction conditions were developed, and the scope of this cyclization studied. Keywords: cyclization; DFT; hypervalent iodine; mechanism; proline; Introduction Proline is one of the 20 DNA-encoded proteinogenic amino acids that are essential to life [1][2]. In addition, the pyrrolidine core is present in

Phenylseleno trifluoromethoxylation of alkenes

• Clément Delobel,
• Armen Panossian,
• Gilles Hanquet,
• Frédéric R. Leroux,
• Fabien Toulgoat and
• Thierry Billard

Beilstein J. Org. Chem. 2024, 20, 2434–2441, doi:10.3762/bjoc.20.207

• , entry 7). Finally, the reaction time was reduced from 24 h to 2.5 h without affecting the yield (Table 1, entry 8). In order to better understand the mechanism of the reaction, an NMR study of the premixing of DDPyOCF3 with PhSeBr was performed. The disappearance of the broad signal of CF3O− and the

• . Consequently, the mechanism described in Scheme 1 can be proposed. Under optimal conditions (Table 1, entry 8), various alkenes were functionalized (Scheme 2). In general, the reaction gave good yields for both cyclic (2a–d, 2j) and aliphatic alkenes (2e–2i, 2k, l). Similar results were observed regardless of

• by chromatography. Examples of trifluoromethoxylated drugs. Proposed mechanism of the reaction and 19F NMR of the DDPYOCF3/PhSeBr mixture. Phenylseleno trifluoromethoxylation of various alkenes. Yields determined by 19F NMR spectroscopy with PhCF3 as internal standard (in parentheses isolated yields

Facile preparation of fluorine-containing 2,3-epoxypropanoates and their epoxy ring-opening reactions with various nucleophiles

• Yutaro Miyashita,
• Sae Someya,
• Tomoko Kawasaki-Takasuka,
• Tomohiro Agou and
• Takashi Yamazaki

Beilstein J. Org. Chem. 2024, 20, 2421–2433, doi:10.3762/bjoc.20.206

• -to-handle reagent, NaOCl·5H2O. Because very little has been disclosed about the reactivity of such 2,3-epoxyesters, their epoxy ring opening by a variety of nucleophiles was carried out and we succeeded in clarifying these chemo- as well as regioselective processes proceeding via the SN2 mechanism to

• outcomes would stem from a result of the electronically repulsive interaction between the incoming nucleophiles and an electronically strongly negative CF3 group, and the anticipated clean SN2 mechanism of epoxides in general, respectively. This is interestingly compared with the case of 2a with

• . If the in situ conversion of anti,syn-7a to anti,syn-7b follows the above ester alcohol exchange mechanism, employment of dibenzyl malonate should afford a single compound. This is actually the case and the expected dihydrofuran anti,syn-7c was obtained in 53% yield as a 98:2 diastereomer mixture

Homogeneous continuous flow nitration of O-methylisouronium sulfate and its optimization by kinetic modeling

• Jiapeng Guo,
• Weike Su and
• An Su

Beilstein J. Org. Chem. 2024, 20, 2408–2420, doi:10.3762/bjoc.20.205

• understanding of the nitrification mechanism and optimization of the reaction. Luo et al. have carried out extensive research on this topic and obtained accurate kinetic data for the nitration of chlorobenzene [17], o-nitrotoluene [18], and p-nitrotoluene [19] by constructing a homogeneous continuous flow

Efficient one-step synthesis of diarylacetic acids by electrochemical direct carboxylation of diarylmethanol compounds in DMSO

• Hisanori Senboku and
• Mizuki Hayama

Beilstein J. Org. Chem. 2024, 20, 2392–2400, doi:10.3762/bjoc.20.203

• proton abstraction from DMSO to produce 3 as main product. It was thought that the increase of steric hindrance caused a reduction in nucleophilicity and an increase in basicity in the generated triphenylmethyl anion species, in comparison to the diphenylmethyl anion species. To elucidate the mechanism

Synthesis, electrochemical properties, and antioxidant activity of sterically hindered catechols with 1,3,4-oxadiazole, 1,2,4-triazole, thiazole or pyridine fragments

• Daria A. Burmistrova,
• Andrey Galustyan,
• Nadezhda P. Pomortseva,
• Kristina D. Pashaeva,
• Maxim V. Arsenyev,
• Oleg P. Demidov,
• Mikhail A. Kiskin,
• Andrey I. Poddel’sky,
• Nadezhda T. Berberova and
• Ivan V. Smolyaninov

Beilstein J. Org. Chem. 2024, 20, 2378–2391, doi:10.3762/bjoc.20.202

• previously found that the reaction between 3,5-di-tert-butyl-6-methoxymethylcatechol and different functionalized thiols occurs via an acid-catalyzed mechanism and leads to corresponding thioethers with methylene linker [53][54]. Hybrid structures of this type are of particular interest from the point of

• –80%) (Scheme 1a). The reaction between 3,5-di-tert-butyl-6-methoxymethylcatechol and 2-mercapto-4-phenylthiazole or 3-nitropyridine-2-thiol occurs via an acid-catalyzed mechanism and leads to corresponding thioethers 4, 5 with methylene linker in a good yield (80% and 63%, correspondingly) (Scheme 1b

• the electrochemical properties of functionalized catechols allows one to suggest the mechanism of their electrooxidation, establish electron transfer centers, and predict antioxidant activity based on electrochemical data. To determine electron-transfer centers, the oxidation potentials of the

Asymmetric organocatalytic synthesis of chiral homoallylic amines

• Nikolay S. Kondratyev and
• Andrei V. Malkov

Beilstein J. Org. Chem. 2024, 20, 2349–2377, doi:10.3762/bjoc.20.201

• concerted SN2 mechanism or SN1 mechanism with the allyl nucleophile addition step as rate-determining. Interestingly, the authors observed a 0.55 order in the catalyst, which indicates that a substantial part of the catalyst forms a hydrogen-bonded dimer with Kdiss ≈ 1000 M−1 when not in the catalytic cycle

• by a nucleophile, is energetically favoured over pathway via 77, in which the imine is activated directly by coordination to the Lewis acidic boron atom of the free imine complex. This supports the mechanism proposed in the original study based on the NMR experiments. In 2021, Jacobsen and co-workers

• the H-bond-donor association of catalysts 111 to the Cl− ion of the N-acylquinolinium intermediate 108, though a detailed investigation into the mechanism of the enantiodifferentiation has not been carried out (Scheme 22). In total 15 different quinolines were tested. The yields varied in the range of

Tandem diazotization/cyclization approach for the synthesis of a fused 1,2,3-triazinone-furazan/furoxan heterocyclic system

• Yuri A. Sidunets,
• Valeriya G. Melekhina and
• Leonid L. Fershtat

Beilstein J. Org. Chem. 2024, 20, 2342–2348, doi:10.3762/bjoc.20.200

• additionally confirmed by X-ray diffraction (see Supporting Information File 1 for details) (Figure 2). To confirm the reaction mechanism, we performed diazotization followed by azo coupling of amide 2a using labeled Na15NO2 as the nitrosating reagent (Scheme 4). As a result, 15N-labeled triazinone 8 was

Improved deconvolution of natural products’ protein targets using diagnostic ions from chemical proteomics linkers

• Andreas Wiest and
• Pavel Kielkowski

Beilstein J. Org. Chem. 2024, 20, 2323–2341, doi:10.3762/bjoc.20.199

• Andreas Wiest Pavel Kielkowski LMU Munich, Department of Chemistry, Butenandtstr. 5-13, 81377 Munich, Germany 10.3762/bjoc.20.199 Abstract Identification of interactions between proteins and natural products or similar active small molecules is crucial for understanding of their mechanism of

• interrupted CuAAC mechanism [65]. The thiotriazole product of this reaction, which is indistinguishable in the protein-level downstream analysis, is formed by coupling between protein free thiol groups and the triazole–copper adduct (Figure 4). However, its formation can be avoided by eliminating the free

• sufficient resolution and depth [52]. In general, cleavable linkers can be divided into two main groups based on the cleavage mechanism, which can be either enzymatic or chemical. The advantage of cleavable linkers is the possibility to combine stringent enrichment, ensured by the biotin–streptavidin complex

Stereoselective mechanochemical synthesis of thiomalonate Michael adducts via iminium catalysis by chiral primary amines

• Michał Błauciak,
• Dominika Andrzejczyk,
• Błażej Dziuk and
• Rafał Kowalczyk

Beilstein J. Org. Chem. 2024, 20, 2313–2322, doi:10.3762/bjoc.20.198

• proved by X-ray studies. Assuming the mechanism of addition is similar in the case of other nucleophiles, the configuration of others was assigned by analogy. More sterically demanding di-tert-butyl thiomalonate (2) reacted in a similar fashion as the dibenzyl thiomalonate (1), leading also to desired

Hydrogen-bond activation enables aziridination of unactivated olefins with simple iminoiodinanes

• Phong Thai,
• Lauv Patel,
• Diyasha Manna and
• David C. Powers

Beilstein J. Org. Chem. 2024, 20, 2305–2312, doi:10.3762/bjoc.20.197

• consistent with H-bonding between HFIP and 2c, which results in a more potent oxidant and gives rise to the observed HFIP-promoted olefin aziridination chemistry. A number of observations are relevant to the mechanism by which unactivated olefin aziridination is accomplished by the HFIP-activated

• be unreactive towards sulfonamide (Scheme 4e), suggesting that epoxidation is not on path to the observed aziridines. For discussion of side-products and reaction mass balance, see Figure S4 (Supporting Information File 1). Based on these observations, we favor a mechanism in which H-bond activated

• give rise to epoxidation products. Epoxides are not on-path to the observed aziridines. f) Proposed reaction mechanism. Optimization of HFIP-promoted aziridination of cyclohexene (1a). Conditions: 0.20 mmol 1a, 0.40 mmol PhINTs 2a, 1.0 mL HFIP, N2 atmosphere, 20 °C, 16 h. Yield was determined via 1H

Catalysing (organo-)catalysis: Trends in the application of machine learning to enantioselective organocatalysis

• Stefan P. Schmid,
• Leon Schlosser,
• Frank Glorius and
• Kjell Jorner

Beilstein J. Org. Chem. 2024, 20, 2280–2304, doi:10.3762/bjoc.20.196

• include the development of ACE (Asymmetric Catalyst Evaluation) [19][20], AARON (Automated Reaction Optimiser for New Catalysts) [21] or CatVS (Catalyst Virtual Screening) [22]. Such tools have been extensively reviewed in the past years [23][24][25]. Based on a known mechanism, the tools calculate the

• physicochemical descriptors. A prominent early example are Hammett parameters, developed in 1937 [26][27], that relate substituent parameters to the equilibrium constant of the deprotonation of a substituted benzoic acid. The derived substituent parameters are used to gain insight into the mechanism of reactions

• also the structure for which the descriptors are considered. This can either be ensured by expert-knowledge of preselecting relevant structures, for example based on a known mechanism, or by considering information from the entire conformer ensemble. Parallel to the evolution in modelling steric

Deuterated reagents in multicomponent reactions to afford deuterium-labeled products

• Kevin Schofield,
• Shayna Maddern,
• Yueteng Zhang,
• Grace E. Mastin,
• Rachel Knight,
• Wei Wang,
• James Galligan and
• Christopher Hulme

Beilstein J. Org. Chem. 2024, 20, 2270–2279, doi:10.3762/bjoc.20.195

• increased the overall yield of the reaction (Table 1, entry 5). In summary, minimal formamide (1–2 equiv), excess [D2]-formic acid, and heating to 170 °C in a microwave reactor for 5 minutes is expected to give excellent yields in good deuteration %. A tentative mechanism to [D3]-formamides is shown in

• utility for the drug-hunting community at large. Competitive examples of D2-benzylamine formation via phenyl-nitriles. Proposed tentative mechanism of [D3]-formamide formation via modified Leuckart–Wallach reaction with [D2]-formic acid. Ugi-4CR products: no deuterium scrambling observed. Ugi-3CR products

gem-Difluorination of carbon–carbon triple bonds using Brønsted acid/Bu₄NBF₄ or electrogenerated acid

• Mizuki Yamaguchi,
• Hiroki Shimao,
• Kengo Hamasaki,
• Keiji Nishiwaki,
• Shigenori Kashimura and
• Kouichi Matsumoto

Beilstein J. Org. Chem. 2024, 20, 2261–2269, doi:10.3762/bjoc.20.194

• electricity was passed to the solution. A plausible reaction mechanism for the current reactions is described in Scheme 3. The reaction of carbon–carbon triple bonds and H+ species, which are derived from the Brønsted acid (in method A) or EGA (in method B), gives the vinylic carbocation intermediate A, which

• for 2a. Plausible reaction mechanism. Optimization of the gem-difluorination of hex-5-yn-1-ylbenzene (1a) to form difluorinated compound 2a (method A). Scope and limitations. Supporting Information Supporting Information File 84: Experimental procedure, characterization data of compounds and copies

Cell-free protein synthesis with technical additives – expanding the parameter space of in vitro gene expression

• Tabea Bartsch,
• Stephan Lütz and
• Katrin Rosenthal

Beilstein J. Org. Chem. 2024, 20, 2242–2253, doi:10.3762/bjoc.20.192

• a known mechanism that positively influences CFPS reactions [25]. Interestingly, increasing the concentration of PEG-8000, and thus increasing the viscosity and macromolecular concentration of the CFPS solution towards the properties of the cytoplasm, has a negative effect on the sfGFP synthesis

Metal-free double azide addition to strained alkynes of an octadehydrodibenzo[12]annulene derivative with electron-withdrawing substituents

• Naoki Takeda,
• Shuichi Akasaka,
• Susumu Kawauchi and
• Tsuyoshi Michinobu

Beilstein J. Org. Chem. 2024, 20, 2234–2241, doi:10.3762/bjoc.20.191

• substituents has a lower Ea than DBA with electron-donating substituents. DFT calculations The reaction mechanism was investigated by computational calculations. The reaction mechanism between 5 and benzyl azide was supported by the ωB97X-D/6-31G(d,p) calculations with the CH2Cl2 polarizable continuum model

• . (a) Strain-promoted azide–alkyne cycloaddition between DBA 5 and benzyl azide and (b) 1H NMR spectral change at 30 °C in CDCl3. Arrhenius plots of the rate constants for the reaction between 5 and benzyl azide in CDCl3. Proposed reaction mechanism for the formation of compound 6a. Free energy