Synthesis and properties of 6-alkynyl-5-aryluracils

• Ruben Manuel Figueira de Abreu,
• Till Brockmann,
• Alexander Villinger,
• Peter Ehlers and
• Peter Langer

Beilstein J. Org. Chem. 2024, 20, 898–911, doi:10.3762/bjoc.20.80

• molecules within and between a layer with two molecules at the top and the bottom of the unit cell. b) Determined from X-ray structural analysis at 123 K. Element color: carbon (grey), hydrogen (white), oxygen (red) and nitrogen (blue). The thermal ellipsoids are drawn at the 50% probability level. UV–vis

Three-component N-alkenylation of azoles with alkynes and iodine(III) electrophile: synthesis of multisubstituted N-vinylazoles

• Jun Kikuchi,
• Roi Nakajima and
• Naohiko Yoshikai

Beilstein J. Org. Chem. 2024, 20, 891–897, doi:10.3762/bjoc.20.79

• difunctionalization of alkynes with various heteroatom and carbon nucleophiles [27][28][29][30][31][32][33][34]. Specifically, intermolecular trans-iodo(III)functionalization of alkynes has been achieved using oxygen nucleophiles such as alcohols [28][32], ethers [33], carboxylic acids [31], phosphate esters [31

(Bio)isosteres of ortho- and meta-substituted benzenes

• H. Erik Diepers and
• Johannes C. L. Walker

Beilstein J. Org. Chem. 2024, 20, 859–890, doi:10.3762/bjoc.20.78

• -oxabicyclo[2.1.1]hexanes To further increase the water solubility of 1,5-BCHs, Mykhailiuk and co-workers proposed 1,5-disubsituted-3-oxabicyclo[2.1.1]hexanes (3-oxa-1,5-BCHs) as isosteres for ortho-benzenes, introducing an oxygen atom into the hydrocarbon scaffold (Figure 10) [45]. Exit vector analysis

Confirmation of the stereochemistry of spiroviolene

• Yao Kong,
• Yuanning Liu,
• Kaibiao Wang,
• Tao Wang,
• Chen Wang,
• Ben Ai,
• Hongli Jia,
• Guohui Pan,
• Min Yin and
• Zhengren Xu

Beilstein J. Org. Chem. 2024, 20, 852–858, doi:10.3762/bjoc.20.77

• amount of the C-9 epimerization product 11 might be explained by a competing radical oxidation of the organoborane intermediate IM-16 by oxygen when the oxidation step is opened to air [32][33]. On the other hand, an alternative mechanism for the formation of 11 involving the oxidation of the 9-epi-IM-16

Activity assays of NnlA homologs suggest the natural product N-nitroglycine is degraded by diverse bacteria

• Kara A. Strickland,
• Brenda Martinez Rodriguez,
• Ashley A. Holland,
• Shelby Wagner,
• Michelle Luna-Alva,
• David E. Graham and
• Jonathan D. Caranto

Beilstein J. Org. Chem. 2024, 20, 830–840, doi:10.3762/bjoc.20.75

• ), limiting the use of this model to predict the heme environment. Nevertheless, this protein–ligand model heme binding between the β-sheet and an α-helix based on similarity to the oxygen-sensing dimeric DosH protein [34]. DosH is also a heme-binding PAS-domain containing protein, further validating the

• residues outside of the heme pocket are colored in magenta. Nitrogen, oxygen, and iron atoms are colored blue, red, and orange, respectively. Figure generated using PyMOL. Phylogenetic tree of NnlA homologs with accession numbers. Branch lengths correspond to amino acid substitutions per position. Numbers

Skeletal rearrangement of 6,8-dioxabicyclo[3.2.1]octan-4-ols promoted by thionyl chloride or Appel conditions

• Martyn Jevric,
• Julian Klepp,
• Johannes Puschnig,
• Oscar Lamb,
• Christopher J. Sumby and
• Ben W. Greatrex

Beilstein J. Org. Chem. 2024, 20, 823–829, doi:10.3762/bjoc.20.74

• 10.3762/bjoc.20.74 Abstract A skeletal rearrangement of a series of 6,8-dioxabicyclo[3.2.1]octan-4-ols has been developed using SOCl2 in the presence of pyridine. An oxygen migration from C5 to C4 was observed when the C4 alcohols were treated with SOCl2/pyridine, giving a 2-chloro-3,8-dioxabicyclo[3.2.1

• -cleavage reactions and rearrangements when modified at the 4-position [15][16][17]. Baillargeon and Reddy first reported rearrangements of 6,8-dioxabicyclo[3.2.1]octane derivatives promoted by diethylaminosulfur trifluoride (DAST) [18], and later Karban and co-workers reported a migration of oxygen from

• stereoisomer 10f in 91% yield. The selectivity of the NaBH4 reduction was confirmed for both 10d (see discussion in Supporting Information File 1) and 10e by X-ray crystallography (Figure 2 and Scheme 1, respectively). The oxygen-migration reaction giving 11a was initially observed using the readily available

Advancements in hydrochlorination of alkenes

• Daniel S. Müller

Beilstein J. Org. Chem. 2024, 20, 787–814, doi:10.3762/bjoc.20.72

• by the British Oxygen Cooperation in 1956 [47]. In 2012, Carreira reported the hydrochlorination of alkene 27, yielding racemic (±)- gomerone C (28) [48]. Grob observed that the stereochemistry of hydrochlorination reactions can be significantly influenced by the solvent or temperature (Table 1) [9

Synthesis and characterization of water-soluble C₆₀–peptide conjugates

• Yue Ma,
• Lorenzo Persi and
• Yoko Yamakoshi

Beilstein J. Org. Chem. 2024, 20, 777–786, doi:10.3762/bjoc.20.71

• the HRESIMS results (Figure S2, Supporting Information File 1), it was confirmed that the highly water-soluble compound 5a was successfully synthesized. 1O2 generation under visible light irradiation To preliminarily evaluate the synthesized C60–oligo-Lys (5a) as a PS, generation of singlet oxygen was

Synthesis of new representatives of A₃B-type carboranylporphyrins based on meso-tetra(pentafluorophenyl)porphyrin transformations

• Victoria M. Alpatova,
• Evgeny G. Rys,
• Elena G. Kononova and
• Valentina A. Ol'shevskaya

Beilstein J. Org. Chem. 2024, 20, 767–776, doi:10.3762/bjoc.20.70

• biosensors, bioimaging probes, and especially as photosensitizers (PSs) in photodynamic therapy (PDT) [2]. PDT is a treatment modality that uses the combination of a non-toxic PS, oxygen, and light to treat diseases ranging from cancer to age-related macular degeneration and antibiotic-resistant infections

• [8]. Further improvement of the PDT method requires the search for new photosensitizers having higher photoactivity, tumor selectivity, and high singlet oxygen quantum yield, as well as low in vivo toxicity [7]. Therefore, some strategies have been developed to enhance the therapeutic efficiency of

Methodology for awakening the potential secondary metabolic capacity in actinomycetes

• Shun Saito and
• Midori A. Arai

Beilstein J. Org. Chem. 2024, 20, 753–766, doi:10.3762/bjoc.20.69

• carbonate and terminal olefin functionalities [50]. Thus, artificial methods of genetic engineering and chemistry also play an important role in the identification of novel secondary metabolites. Culture conditions Medium composition, pH, oxygen supply, light Simply modifying the culture conditions is an

• Zeeck and co-workers in the early 2000s, is a method in which the target bacteria are cultured under various conditions (medium composition, temperature, pH, oxygen supply, light quality and quantity, addition of precursors and enzyme inhibitors, etc.) and all metabolites obtained from them are analyzed

• pH of the culture medium from becoming too acidic [17]. In addition, Mehmood et al. reported that the oxygen supply controls the production of pristinamycins 27 in Streptomyces pristinaespiralis (Figure 3e) [68]. Takano et al. discovered the light-induced production of carotenoid pigments, including

Research progress on the pharmacological activity, biosynthetic pathways, and biosynthesis of crocins

• Zhongwei Hua,
• Nan Liu and
• Xiaohui Yan

Beilstein J. Org. Chem. 2024, 20, 741–752, doi:10.3762/bjoc.20.68

• , and epileptic disorders [26][27]. Four mechanisms have been reported for the treatment of Alzheimer's disease with crocins. Crocins function as antioxidants that slow down the progression of the disease by increasing the ʟ-glutathione (GSH) level and reducing the presence of reactive oxygen species

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

• work [45], and will be only shortly described in a summarized form (Scheme 3). Styrene substituted with a tert-butyl at the para position afforded 4b in 78% yield. Using a styrene bearing a sterically hindered aryl afforded 4c in a similar yield. Homopropargylic azides possessing oxygen substituents

Organic electron transport materials

• Joseph Cameron and
• Peter J. Skabara

Beilstein J. Org. Chem. 2024, 20, 672–674, doi:10.3762/bjoc.20.60

• orthogonal processing. One of the biggest challenges with n-type materials is air stability. This is explained by the redox potentials of water (−0.66 V vs standard calomel electrode (SCE)) and oxygen (+0.024 V vs SCE, +0.57 V vs SCE) [2][3]. Therefore, it has been observed that once the overpotential

Chemical and biosynthetic potential of Penicillium shentong XL-F41

• Ran Zou,
• Xin Li,
• Xiaochen Chen,
• Yue-Wei Guo and
• Baofu Xu

Beilstein J. Org. Chem. 2024, 20, 597–606, doi:10.3762/bjoc.20.52

• unusual methyl modification at the oxygen atom of the typical succinimide ring, a feature not seen in the structurally similar brocaeloid D. Additionally, shentonin A (1) exhibits a cis relationship between H-3 and H-4, as opposed to the trans configuration in brocaeloid D, suggesting a divergent

• transformation of the five-membered pyrrole ring in compound 2 to the six-membered ring in compound 1 is particularly intriguing. For this transformation, three hypotheses are considered. One suggests that the methyl modification at the oxygen atom of the succinimide ring occurs first, which is then followed by

• a ring-opening rearrangement. Alternatively, it is proposed that the ring-opening rearrangement precedes the methyl modification at the oxygen atom of the succinimide ring. We aim to confirm the initial step of this pathway, where tryptophan and DMAPP are catalyzed by the enzyme ShnA to form a

Recent developments in the engineered biosynthesis of fungal meroterpenoids

• Zhiyang Quan and
• Takayoshi Awakawa

Beilstein J. Org. Chem. 2024, 20, 578–588, doi:10.3762/bjoc.20.50

• the αKG-dependent dioxygenase have been analyzed in detail due to its relatively small molecular weight and the low costs of its cofactors: αKG, ascorbic acid, and iron ions. The αKG reacts with iron and molecular oxygen to form the highly reactive Fe(IV)=O via oxidative decarboxylation. This active

Entry to new spiroheterocycles via tandem Rh(II)-catalyzed O–H insertion/base-promoted cyclization involving diazoarylidene succinimides

• Alexander Yanovich,
• Anastasia Vepreva,
• Ksenia Malkova,
• Grigory Kantin and
• Dmitry Dar’in

Beilstein J. Org. Chem. 2024, 20, 561–569, doi:10.3762/bjoc.20.48

• ) or a bromine atom. These transformations yield spiro-annulated O-heterocycles with succinimide ring, namely spiro-Δα,β-butenolides 2 and 3, tetrahydrofurans 4 and benzopyrans 5 (Scheme 1). Fragments of these oxygen-containing spiro-conjugated heterocycles are part of many important drugs and natural

• of compound 4b has been confirmed by single crystal X-ray data. The next step was to investigate the possibility of obtaining six-membered oxygen-containing spiroheterocycles by interaction of DAS 1 with 2-(bromomethyl)benzyl alcohol (15) (Scheme 6). The synthesis was carried out under the conditions

• attack of the oxygen atom of the ester group on the benzyl bromide residue prevails, with the cleavage of the arylidene succinimide fragment involved in further non-selective processes. The causes of the failed cyclizations in the last two cases can be summarized as follows. The intermediates obtained

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

• proximity of the metallic centers which allows MMLCT transitions. These properties have been used to generate reactive oxygen species (ROS) and efficient photocatalytic oxidative cyanation of N-phenyl-1,2,3,4-tetrahydroisoquinoline. The photocatalytic activity of the catalyst could be allosterically imbibed

• switching [65]. The Zn-closed tweezers were opened by adding H2PO4− to competitively complex the Zn2+ ions. Then, Ca2+ was added to precipitate the hydrogen phosphate adduct and release the Zn2+ ions, closing the tweezers again. Another class of a coordination-responsive spacer using oxygen coordination

• using metal complexes as switching units (Figure 20). This concept named “weak link approach” (WLA) [78] uses square planar d8-transition metal complexes with two hemilabile bidentate ligands composed of a strong binding site (phosphorus) and a weaker one (generally sulfur, oxygen, selenium, or nitrogen

Ligand effects, solvent cooperation, and large kinetic solvent deuterium isotope effects in gold(I)-catalyzed intramolecular alkene hydroamination

• Ruichen Lan,
• Brock Yager,
• Yoonsun Jee,
• Cynthia S. Day and
• Amanda C. Jones

Beilstein J. Org. Chem. 2024, 20, 479–496, doi:10.3762/bjoc.20.43

• localized due to the strong competitive carbonyl resonance donation of the non-attacking nitrogen. Weaker competitive donation from the more electronegative oxygen, and the less electron-donating phenyl, would lead to decreasing nucleophilicity, respectively, for the carbamate and benzamide attacking

• behaves accordingly here [66]. Specific gold–oxygen interactions are typically not invoked in mechanistic discussions, though a gold alcohol complex has been proposed in silyl enol ether protonation [67]. Equilibrium studies by Maier et al. indicate that methanol is more weakly coordinating than alkynes

• our earlier studies with basic gold reagents, the alkylgold intermediate is observed only in the presence of base further supporting the importance of nucleophile activation for gold π-activation. A mechanism that involves gold-carbonyl coordination via oxygen would serve to release of a proton in a

Pseudallenes A and B, new sulfur-containing ovalicin sesquiterpenoid derivatives with antimicrobial activity from the deep-sea cold seep sediment-derived fungus Pseudallescheria boydii CS-793

• Zhen Ying,
• Xiao-Ming Li,
• Sui-Qun Yang,
• Hong-Lei Li,
• Xin Li,
• Bin-Gui Wang and
• Ling-Hong Meng

Beilstein J. Org. Chem. 2024, 20, 470–478, doi:10.3762/bjoc.20.42

• , four methines (with one olefinic and two oxygenated), and four non-protonated carbons (with one olefinic and three bonded to oxygen). Detailed interpretation of the COSY spectrum of compound 1 revealed the presence of two discrete proton spin-coupling systems corresponding to a –CH–CH(OH)–CH2–CH2– unit

Synthesis of 2,2-difluoro-1,3-diketone and 2,2-difluoro-1,3-ketoester derivatives using fluorine gas

• Alexander S. Hampton,
• David R. W. Hodgson,
• Graham McDougald,
• Linhua Wang and
• Graham Sandford

Beilstein J. Org. Chem. 2024, 20, 460–469, doi:10.3762/bjoc.20.41

• rotated to maximize the distances between the lone pairs of the electron-rich fluorine and oxygen atoms. Usually, one of the fluorine atoms lies in a syn orientation to an oxygen (e.g., 3f has an F–C–C–O dihedral angle of 15.6°) creating a dipole. This dipole appears to aid crystal packing by forming weak

Green and sustainable approaches for the Friedel–Crafts reaction between aldehydes and indoles

• Periklis X. Kolagkis,
• Eirini M. Galathri and
• Christoforos G. Kokotos

Beilstein J. Org. Chem. 2024, 20, 379–426, doi:10.3762/bjoc.20.36

• produce a wide range of bis(indolyl)methanes 28 in good to excellent yields (62–93%) [93][94]. Regarding the mechanism of action of this methodology, two halogen bonds are formed between the bidentate halogen-bond donor 26 and the oxygen of the carbonyl group (Scheme 12). This increases the

Mechanisms for radical reactions initiating from N-hydroxyphthalimide esters

• Carlos R. Azpilcueta-Nicolas and
• Jean-Philip Lumb

Beilstein J. Org. Chem. 2024, 20, 346–378, doi:10.3762/bjoc.20.35

• . Radical intermediate 9 formed upon fragmentation of 25, adds to the styrene acceptor forming radical 26. Finally, a radical-polar crossover event between 26 and the IrIV complex regenerates the IrIII ground state while delivering cation 27 that is then trapped by the oxygen-nucleophile to form the

• ] (Scheme 7A). Cyclic voltammetry measurements of a model NHPI ester showed a shift in its reduction potential from –1.79 V to –1.51 V (vs SCE in MeCN) in the presence of In(OTf)3. As such, it was hypothesized that the Lewis acid lowers the LUMO of the NHPI ester via interaction with the oxygen lone pair in

• electron reduction of 58, generating the persistent radical 147 and the transient species 148, which fragments into tert-butyl radical (64). Notably, the reduction of NHPI ester 58 could be facilitated by interaction of a cesium cation with the oxygen lone pair of the phthalimide, in analogy to the

Elucidating the glycan-binding specificity and structure of Cucumis melo agglutinin, a new R-type lectin

• Jon Lundstrøm,
• Emilie Gillon,
• Valérie Chazalet,
• Nicole Kerekes,
• Antonio Di Maio,
• Ten Feizi,
• Yan Liu,
• Annabelle Varrot and
• Daniel Bojar

Beilstein J. Org. Chem. 2024, 20, 306–320, doi:10.3762/bjoc.20.31

• would lead to steric clashes and loss of strong hydrogen bonding. In the LacNAc-complexed structure (PDB ID 8R8A) [29], the GlcNAc residue did not seem to engage in extensive interactions, with only a hydrogen bond between the N-acetyl moiety and the main chain oxygen of Gly24 and hydrophobic

• . While no direct interactions with the protein backbone were observed, we found one water molecule to mediate hydrogen bonding between the oxygen of the N-acetyl group and the Asn43 side chain oxygen (Figure 4d). Both GalNAc anomers could be observed, showing interactions through water molecule

• coordination with the Trp36 ring nitrogen (alpha anomer) or the Gly24 main chain oxygen (beta anomer). Conclusion Our work presents a substantial exploration of the binding specificity and mechanism of the hitherto uncharacterized lectin CMA1 from melons. The binding specificity of CMA1, C2-substituted

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

• the synthesis of a series of HBC precursors incorporating a group-16 heteroatom embedded in a seven-membered ring. In the case of oxygen, the fully cyclized HBC 26a containing an oxepine ring and exhibiting a saddle-shape tridimensional structure was successfully prepared (Scheme 8, top). Conversely

• the corresponding planar HBC at room temperature upon acidic treatment under air, thus triggering SeO-elimination as well as cyclodehydrogenation in a single step. As mentioned above, oxepine derivatives display higher stability compared to other chalcogen heteropines and direct oxygen extrusion from

• oxepines under photo- or thermal activation has not been reported. Oxygen thus appears as the chalcogen element of choice to obtain stable heteropines embedded in π-CPCs and study the properties of such non-planar compounds. Very recently, Fukui, Shinokubo and co-worker reported the synthesis of

Photochromic derivatives of indigo: historical overview of development, challenges and applications

• Gökhan Kaplan,
• Zeynel Seferoğlu and
• Daria V. Berdnikova

Beilstein J. Org. Chem. 2024, 20, 228–242, doi:10.3762/bjoc.20.23

• lifetimes, radiative and non-radiative relaxation pathways of the indigo chromophore [26][27][30][31][32][33][34][35] as well as to estimate ionization potentials and electronic structures [28][29], singlet oxygen generation capacity [31], QSAR properties [25], and others. In both solution and solid state