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

• -PAGE) and visualized by in-gel fluorescence scanning (Figure 6A). In this approach the tag is a suitable fluorophore. Previously, during an introduction period of a chemical proteomics workflow of activity-based protein profiling (ABPP), the resulting fluorescent bands might be simply cut out from the

• probe–protein interaction leading to disappearance of the fluorescent bands. A gel shift assay is a complementary strategy to validate the labeling of a specific protein (Figure 6B) [65][79]. The assay is based on an increased retardation of the probe-labeled protein on SDS-PAGE due to the addition of a

Electrochemical allylations in a deep eutectic solvent

• Sophia Taylor and
• Scott T. Handy

Beilstein J. Org. Chem. 2024, 20, 2217–2224, doi:10.3762/bjoc.20.189

• end, the DES mixture from cycle 3 of Table 8 following product extraction was electrolyzed at 100 mA constant current using glassy carbon electrodes until 2 F/mol of current had passed. This deposited a metal clump on the electrode that was removed and then analyzed using X-ray fluorescent

• using a scoopula for further use and analysis using a Thermo Scientific Niton XL3t X-Ray Fluorescent Spectroscopy analyzer. Product characterization 1-(4-Methoxyphenyl)-3-buten-1-ol [39]: 1H NMR (300 MHz, CDCl3) 7.27 (d, J = 8.58, 2H), 6.86 (d, J = 5.82, 2H), 5.83–5.73 (m, 1H), 5.17–5.10 (m, 2H), 4.67

Novel truxene-based dipyrromethanes (DPMs): synthesis, spectroscopic characterization and photophysical properties

• Shakeel Alvi and
• Rashid Ali

Beilstein J. Org. Chem. 2024, 20, 2163–2170, doi:10.3762/bjoc.20.186

• ][12][13]. The most promising applications of truxene-based systems have been found in organic photovoltaics (OPVs), dye‐sensitized solar cells (DSSCs), fluorescent probes, organic thin‐film transistors (OTFTs), lasers, organic light emitting diodes (OLEDs), liquid crystals, non-linear optical (NLO

Cage-like microstructures via sequential Ugi reactions in aqueous emulsions

• Rita S. Alqubelat,
• Yaroslava A. Menzorova and
• Maxim A. Mironov

Beilstein J. Org. Chem. 2024, 20, 2078–2083, doi:10.3762/bjoc.20.179

• in favor of the second mechanism. To identify the structure obtained on the surface of the droplets during the formation of the Pickering emulsion, we used fluorescent labels. Aminofluorescein was introduced into the CMC composition with a ratio of 3 mg per 1 g of cellulose using condensation in the

A new platform for the synthesis of diketopyrrolopyrrole derivatives via nucleophilic aromatic substitution reactions

• Vitor A. S. Almodovar and
• Augusto C. Tomé

Beilstein J. Org. Chem. 2024, 20, 1933–1939, doi:10.3762/bjoc.20.169

• synthesis of highly fluorescent DPP derivatives through straightforward nucleophilic aromatic substitution reactions with thiols and phenols. These nucleophilic substitutions occur at room temperature and manifest a remarkable selectivity for the 4-position of the pentafluorophenyl groups. Both symmetrical

• (disubstitution) and non-symmetrical (monosubstitution) DPP derivatives are formed in excellent overall yields. The optical properties of the newly synthesized compounds are also discussed. The new platform may be useful for bioorthogonal chemistry. Keywords: diketopyrrolopyrrole; fluorescent dye; nucleophilic

• used in a wide range of applications, namely as organic semiconductors [8], acceptors for organic solar cells [9][10], as fluorescent probes [11][12][13], or as photosensitizers for photodynamic therapy and antimicrobial photodynamic therapy [14][15][16][17]. DPP derivatives with improved performance

The Groebke–Blackburn–Bienaymé reaction in its maturity: innovation and improvements since its 21st birthday (2019–2023)

• Cristina Martini,
• Muhammad Idham Darussalam Mardjan and
• Andrea Basso

Beilstein J. Org. Chem. 2024, 20, 1839–1879, doi:10.3762/bjoc.20.162

• obtain new fluorescent products [39]. Starting from perbenzylated β-C-glucopyranosyl aldehyde 26, 2-aminopyridine (1) and cyclohexyl isocyanide (11), they synthesized C-glucoside 28 (Scheme 11). β-C-Glucopyranosyl aldehyde 26 was obtained from ᴅ-glucose following a procedure already established [40

• nucleophilicity. In their second work about this topic, Prasad et al. synthesized 5-(3”-alkyl/arylamino-1”-azaindolizin-2”-yl)-2’-deoxyuridines 31 as new base-modified fluorescent nucleosides with high Stokes’ shift, potentially useful for investigating nucleic acid structure and functions. The authors

Syntheses and medicinal chemistry of spiro heterocyclic steroids

• Laura L. Romero-Hernández,
• Ana Isabel Ahuja-Casarín,
• Penélope Merino-Montiel,
• Sara Montiel-Smith,
• José Luis Vega-Báez and
• Jesús Sandoval-Ramírez

Beilstein J. Org. Chem. 2024, 20, 1713–1745, doi:10.3762/bjoc.20.152

• the sole isomer. Spiropiperidine steroids Recently, Sviripa et al. synthesized novel spiro fused-coumarinpiperidines from 5α-androstan-3-one derivatives as part of their efforts to develop fluorescent inhibitors of 17-oxidoreductases for androgen metabolism in prostate cancer [60]. Starting from

New triazinephosphonate dopants for Nafion proton exchange membranes (PEM)

• Fátima C. Teixeira,
• António P. S. Teixeira and
• C. M. Rangel

Beilstein J. Org. Chem. 2024, 20, 1623–1634, doi:10.3762/bjoc.20.145

• combinatorial chemistry [35], in analytical chemistry, in electrochemical redox processes, in crystal engineering, and as fluorescent, light emitting, corrosion inhibitors or several other materials [36][37][38][39][40][41][42]. The most used triazine is 1,3,5-triazine (or s-triazine) that can provide

Supramolecular assemblies of amphiphilic donor–acceptor Stenhouse adducts as macroscopic soft scaffolds

• Ka-Lung Hung,
• Leong-Hung Cheung,
• Yikun Ren,
• Ming-Hin Chau,
• Yan-Yi Lam,
• Takashi Kajitani and
• Franco King-Chi Leung

Beilstein J. Org. Chem. 2024, 20, 1590–1603, doi:10.3762/bjoc.20.142

• (Gibco). Then, hBM-MSCs (Lonza) were added to the culture dish and cultured for 3 days at 37 °C and 5% CO2 in an incubator. After incubation, the DAn macroscopic scaffold with cells attached was used directly for fluorescent microscopy measurements. UV–vis-absorption-spectral changes of DAn in THF

• fluorescent particles pointed at by orange arrows in (c) and (d) are the clustered hBM-MSCs. Illustration of the reversible visible-light-controlled ring closure and thermal-driven ring-opening-processes of DAn and supramolecular assemblies on different length scales. Synthetic pathway to DAn. Supporting

Synthesis and optical properties of bis- and tris-alkynyl-2-trifluoromethylquinolines

• Stefan Jopp,
• Franziska Spruner von Mertz,
• Peter Ehlers,
• Alexander Villinger and
• Peter Langer

Beilstein J. Org. Chem. 2024, 20, 1246–1255, doi:10.3762/bjoc.20.107

• with trifluoroacetoacetate [17], the synthesis from enaminoketones [18] and the gold-catalysed cyclisation of propargylanilines [19]. Aside from its pharmaceutical significance quinoline compounds have been reported as strongly fluorescent with applications as electroluminescence materials [20][21][22

Structure–property relationships in dicyanopyrazinoquinoxalines and their hydrogen-bonding-capable dihydropyrazinoquinoxalinedione derivatives

• Tural N. Akhmedov,
• Ajeet Kumar,
• Daken J. Starkenburg,
• Kyle J. Chesney,
• Khalil A. Abboud,
• Novruz G. Akhmedov,
• Jiangeng Xue and
• Ronald K. Castellano

Beilstein J. Org. Chem. 2024, 20, 1037–1052, doi:10.3762/bjoc.20.92

• recrystallization from boiling DMSO to obtain highly insoluble red-brown microcrystalline material. 1H and 13C NMR could not be recorded for the compound 3a given its extremely poor solubility in common organic solvents. Rf (CH2Cl2): 0.75, fluorescent orange spot; HRMS (DART): [M + NH4]+ calcd for C22H8N6, 374.1154

Auxiliary strategy for the general and practical synthesis of diaryliodonium(III) salts with diverse organocarboxylate counterions

• Naoki Miyamoto,
• Daichi Koseki,
• Kohei Sumida,
• Elghareeb E. Elboray,
• Naoko Takenaga,
• Ravi Kumar and
• Toshifumi Dohi

Beilstein J. Org. Chem. 2024, 20, 1020–1028, doi:10.3762/bjoc.20.90

• . This method allows for the hybridization of complex bioactive and fluorescent-labeled carboxylic acids with diaryliodonium(III) salts. Keywords: auxiliary ligand; diaryliodonium(III) salts; hybridization; hypervalent iodine; organocarboxylates; Introduction Hypervalent iodine compounds are an

• ) carboxylate 7aj carrying a fluorescent-labeling group in 93% yield. Iodosoarenes 5b–f can be easily obtained by treating (dichloroiodo)arenes [41] or (diacetoxyiodo)arenes [42] with sodium hydroxide, by oxidation of iodoarenes with NaClO·5H2O [43], or by electrolysis [44]. The reaction scope of iodosoarenes

• of the fluorescent-labeling carboxylic acid 6j (see Supporting Information File 1, Figure S1). Thus, this post-fluorescence iodonium salt can be used for visual indication of the ligand exchange process, elucidating the arylation mechanism of diaryliodonium(III) salts for their further applications

SOMOphilic alkyne vs radical-polar crossover approaches: The full story of the azido-alkynylation of alkenes

• Julien Borrel and
• Jerome Waser

Beilstein J. Org. Chem. 2024, 20, 701–713, doi:10.3762/bjoc.20.64

• source such as green LEDs or a compact fluorescent lamp (CFL) were used only a small decrease in yield could be observed, although 4 hours of irradiation were needed to reach full conversion using CFL (Table 5, entries 8 and 9). The concentration, a factor expected to play an important role in a three

Synthesis of photo- and ionochromic N-acylated 2-(aminomethylene)benzo[b]thiophene-3(2Н)-ones with a terminal phenanthroline group

• Vladimir P. Rybalkin,
• Sofiya Yu. Zmeeva,
• Lidiya L. Popova,
• Irina V. Dubonosova,
• Olga Yu. Karlutova,
• Oleg P. Demidov,
• Alexander D. Dubonosov and
• Vladimir A. Bren

Beilstein J. Org. Chem. 2024, 20, 552–560, doi:10.3762/bjoc.20.47

• change of the solutions from yellow to dark orange. Subsequent selective interaction with AcO− led to the restoration of the initial absorption and emission properties. Thus, the obtained compounds represent dual-mode “on–off–on” switches of optical and fluorescent properties under sequential exposure to

• change depending on the intensity of sunlight), photochromic tags for biological research and optical sensors [15][16][17][18][19][20][21]. To develop new dual-mode molecular switches capable of efficient modulation of optical and fluorescent properties, both upon irradiation with visible light and upon

• = F, Cl, Br, I, CN, SCN, NO3) did not cause similar changes in the absorption spectra. This process could be carried out at least 4 or 5 times, which allows modulating optical and fluorescent properties by sequentially adding Fe2+ and AcO− to the acetonitrile solution of compound 2a (Figure 8

Synthesis and biological profile of 2,3-dihydro[1,3]thiazolo[4,5-b]pyridines, a novel class of acyl-ACP thioesterase inhibitors

• Jens Frackenpohl,
• David M. Barber,
• Guido Bojack,
• Birgit Bollenbach-Wahl,
• Ralf Braun,
• Rahel Getachew,
• Sabine Hohmann,
• Kwang-Yoon Ko,
• Karoline Kurowski,
• Bernd Laber,
• Rebecca L. Mattison,
• Thomas Müller,
• Anna M. Reingruber,
• Dirk Schmutzler and
• Andrea Svejda

Beilstein J. Org. Chem. 2024, 20, 540–551, doi:10.3762/bjoc.20.46

• : Fluorescence polarization (FP) competition assays were performed at room temperature in black 96-well microtiter plates (Greiner, Catalog No. 655900). The assay mixture contained 25 mM potassium phosphate buffer pH 7.3, 200 mM NaCl, 0.01% Triton X-100, 2 nM fluorescent tracer, 0.4 µg of purified LpFAT A

• pI50 values were calculated from plots of inhibition values vs test compound concentration using Model 205 of the ID Business Solutions Ltd Xlfit software suite. The FAT A binding fluorescent tracer was synthesized from (2S,4S)-4-[(2,6-difluorophenyl)methoxymethyl]-4-ethyl-2-methyl-N-(prop-2

Switchable molecular tweezers: design and applications

• Pablo Msellem,
• Maksym Dekthiarenko,
• Nihal Hadj Seyd and
• Guillaume Vives

Beilstein J. Org. Chem. 2024, 20, 504–539, doi:10.3762/bjoc.20.45

• electron-rich coordinating guests. Detection by fluorescence was implemented using competition experiments with dimethylaminostyrylpyridine (DMASP). Intercalated DMASP is not emissive, but its displacement by a guest releases its free fluorescent form, which can be detected. The group of Nabeshima reported

• with two bis-2,2’-bipyridyl ligands and bis-pyrene fluorescent units. The stable conformation of perhydroanthracene is with the two pyrene units in the equatorial position. Their close spatial proximity leads to the observation of an excimer emission. Upon Zn2+ coordination, the perhydroanthracene core

• , tweezers 36 bearing pyrene fluorescent groups and using either rhodium(I) or copper(I) complexes as switching units were reported [79]. Cu(I), which avoids the luminescence quenching effect of Rh(I), requires pyridine as an ancillary ligand to complex the metal center and open the tweezers. The

Development of a chemical scaffold for inhibiting nonribosomal peptide synthetases in live bacterial cells

• Fumihiro Ishikawa,
• Sho Konno,
• Hideaki Kakeya and
• Genzoh Tanabe

Beilstein J. Org. Chem. 2024, 20, 445–451, doi:10.3762/bjoc.20.39

• probe 3 (10 µM) in either the absence or presence of ʟ-Phe-AMS inhibitors 1, 2, or 4–9 (10 or 100 µM). GrsA, gramicidin S synthetase; AMS, 5′-O-sulfamoyladenosine; FL, fluorescent gel; CBB; Coomassie brilliant blue. Synthesis of 2′-OH-substituted ʟ-Phe-AMS derivatives. Reagents and conditions: (a) NaH

Facile approach to N,O,S-heteropentacycles via condensation of sterically crowded 3H-phenoxazin-3-one with ortho-substituted anilines

• Eugeny Ivakhnenko,
• Vasily Malay,
• Pavel Knyazev,
• Nikita Merezhko,
• Nadezhda Makarova,
• Oleg Demidov,
• Gennady Borodkin,
• Andrey Starikov and
• Vladimir Minkin

Beilstein J. Org. Chem. 2024, 20, 336–345, doi:10.3762/bjoc.20.34

• structure, 3H-phenoxazin-3-ones can easily be accessed through oxidative couplings of o-aminophenols [3][4] or N-aryl-o-benzoquinone imines [5][6]. Further, they can serve as efficient precursors of pentacyclic N,O-heterocyclic compounds that possess promising properties for application in fluorescent

Synthesis of π-conjugated polycyclic compounds by late-stage extrusion of chalcogen fragments

• Aissam Okba,
• Pablo Simón Marqués,
• Kyohei Matsuo,
• Naoki Aratani,
• Hiroko Yamada,
• Gwénaël Rapenne and
• Claire Kammerer

Beilstein J. Org. Chem. 2024, 20, 287–305, doi:10.3762/bjoc.20.30

• dithienonaphthalenes, upon S-extrusion triggered by electrochemical oxidation. Bottom: Exploitation of the S-extrusion process for peroxide sensing, taking advantage of the lability of oxidized dithienobenzothiepine to generate highly fluorescent dithienonaphthalene [63]. Synthesis of S-doped extended triphenylene

Catalytic multi-step domino and one-pot reactions

• Svetlana B. Tsogoeva

Beilstein J. Org. Chem. 2024, 20, 254–256, doi:10.3762/bjoc.20.25

• facile stereoselective tandem reaction based on the asymmetric conjugate addition of dialkylzinc reagents to unsaturated acylimidazoles, followed by trapping of the intermediate zinc enolate with carbocations [12]. A practical one-pot synthesis of fluorescent pyrazolo[3,4-b]pyridin-6-ones by reacting 5

Photoinduced in situ generation of DNA-targeting ligands: DNA-binding and DNA-photodamaging properties of benzo[c]quinolizinium ions

• Julika Schlosser,
• Olga Fedorova,
• Yuri Fedorov and
• Heiko Ihmels

Beilstein J. Org. Chem. 2024, 20, 101–117, doi:10.3762/bjoc.20.11

• compounds, which have been employed in biomedical imaging and as potential DNA-targeting anticancer agents [14][15][16][17]. More recently, a benzoquinolizinium-based fluorescent dye was reported to be used as imaging agent for inflammation and for the evaluation of the physiological response to anti

Multi-redox indenofluorene chromophores incorporating dithiafulvene donor and ene/enediyne acceptor units

• Christina Schøttler,
• Kasper Lund-Rasmussen,
• Line Broløs,
• Philip Vinterberg,
• Ema Bazikova,
• Viktor B. R. Pedersen and
• Mogens Brøndsted Nielsen

Beilstein J. Org. Chem. 2024, 20, 59–73, doi:10.3762/bjoc.20.8

• Systems X10/X50: 40–63 μm). TLC was performed using aluminum sheets covered with silica gel coated with fluorescent indicator. NMR spectra were recorded on a Bruker instrument at 500 MHz and 126 MHz for 1H and 13C NMR, respectively. Deuterated chloroform (CDCl3, 1H = 7.26 ppm, 13C = 77.16 ppm), deuterated

Long oligodeoxynucleotides: chemical synthesis, isolation via catching-by-polymerization, verification via sequencing, and gene expression demonstration

• Yipeng Yin,
• Reed Arneson,
• Alexander Apostle,
• Adikari M. D. N. Eriyagama,
• Komal Chillar,
• Emma Burke,
• Martina Jahfetson,
• Yinan Yuan and
• Shiyue Fang

Beilstein J. Org. Chem. 2023, 19, 1957–1965, doi:10.3762/bjoc.19.146

• 401 nt ODNs were synthesized and purified with CBP. The two were joined together using Gibson assembly to give the 800 nt green fluorescent protein (GFP) gene construct. The sequence of the construct was verified via Sanger sequencing. To demonstrate the potential use of the long ODN synthesis method

• green fluorescent protein (GFP) gene construct using Gibson assembly. Sanger sequencing confirmed the authenticity of the long ODNs. To demonstrate the applications of the long ODN synthesis method, the GFP gene was expressed in E. coli. Results Long ODN synthesis and CBP purification The 800 nt (all

• sequencing. (c) Sequence analysis via transforming NEB® 5-alpha cells, colony PCR, gel electrophoresis (Figure 2C), and Sanger sequencing. CBP, catching-by-polymerization. GFP, green fluorescent protein. nt, nucleotide. PCR, polymerase chain reaction. Gel electrophoresis images of 399 bp (A), 401 bp (B), and

Aromatic systems with two and three pyridine-2,6-dicarbazolyl-3,5-dicarbonitrile fragments as electron-transporting organic semiconductors exhibiting long-lived emissions

• Karolis Leitonas,
• Brigita Vigante,
• Dmytro Volyniuk,
• Audrius Bucinskas,
• Pavels Dimitrijevs,
• Sindija Lapcinska,
• Pavel Arsenyan and
• Juozas Vidas Grazulevicius

Beilstein J. Org. Chem. 2023, 19, 1867–1880, doi:10.3762/bjoc.19.139

• groups to achieve optimal charge-transporting and fluorescent properties within one TADF compound (Figure 1) [5]. The obtained TADF emitters (453 to 550 nm) show photoluminescence quantum yields of up to 98% in oxygen-free toluene solutions. These TADF emitters are suitable for OLEDs with brightness of

• NMR spectra. Funding This work was supported by the project of scientific co-operation program between Latvia, Lithuania, and Taiwan, "Synthesis and study of deep-blue TTF fluorescent emitters to exceed theoretical OLED external quantum efficiency reaching 15%" (grant LV-LT-TW/2023) and Research

Thienothiophene-based organic light-emitting diode: synthesis, photophysical properties and application

• Recep Isci and
• Turan Ozturk

Beilstein J. Org. Chem. 2023, 19, 1849–1857, doi:10.3762/bjoc.19.137

• properties indicated that the composition of thienothiophene, triphenylamine, and boron is a highly suitable combination for fluorescent organic electronics in display technology. Experimental General methods 1H and 13C NMR spectra were recorded on a Varian model NMR spectrometer (500 and 126 MHz) and