Synthesis, biophysical properties, and RNase H activity of 6’-difluoro[4.3.0]bicyclo-DNA

• Sibylle Frei,
• Adam K. Katolik and
• Christian J. Leumann

Beilstein J. Org. Chem. 2019, 15, 79–88, doi:10.3762/bjoc.15.9

• oligonucleotides (AONs) [6]. An effective way to tune the properties of antisense oligonucleotides is by the insertion of the fluorine atom in the sugar moiety of the nucleoside. In this way, the sugar pucker can be controlled which ideally results in an increased affinity towards complementary RNA [7]. An

• oligonucleotides towards complementary DNA and RNA (Table 3). A single insertion of a 6’-diF-bc4,3-T into DNA strands led to a remarkable duplex destabilization versus both complements (ΔTm/mod = −1.6 to −5.5 °C) in a sequence specific manner but with a slight lesser degree of destabilization towards complementary

• (ΔTm/mod = −5.4 °C and −4.5 °C for complementary DNA and RNA, respectively). Interestingly, the DNA/RNA hybrid structure better accommodated multiple 6’-diF-bc4,3-Ts than a single insertion. Additionally, the hybrid structure also better tolerated multiple 6’-diF-bc4,3-T units than the DNA/DNA duplex

Gold-catalyzed ethylene cyclopropanation

• Silvia G. Rull,
• Andrea Olmos and
• Pedro J. Pérez

Beilstein J. Org. Chem. 2019, 15, 67–71, doi:10.3762/bjoc.15.7

• the insertion of the carbene CHCO2Et group into the C–Cl of the solvent was the major one, accordingly with previous work from this and other laboratories using silver-based catalysts [20][21]. Therefore, we moved onto gold-based catalysts that had already been validated for EDA decomposition and

Ruthenium-based olefin metathesis catalysts with monodentate unsymmetrical NHC ligands

• Veronica Paradiso,
• Chiara Costabile and
• Fabia Grisi

Beilstein J. Org. Chem. 2018, 14, 3122–3149, doi:10.3762/bjoc.14.292

• , Figure 6), developed by Grubbs and co-workers, is based on a chelating NHC ligand that is derived from an intramolecular carboxylate-driven C–H bond insertion of the adamantyl N-substituent of the same NHC ligand in complex 22 [20]. Unsymmetrical complexes bearing smaller N-alkyl groups (Figure 7) were

6’-Fluoro[4.3.0]bicyclo nucleic acid: synthesis, biophysical properties and molecular dynamics simulations

• Sibylle Frei,
• Andrei Istrate and
• Christian J. Leumann

Beilstein J. Org. Chem. 2018, 14, 3088–3097, doi:10.3762/bjoc.14.288

• , Figure 1) [23]. Another strategy to overcome some of the limitations deals with the insertion of one or several fluorine atom(s) in the sugar moiety of the nucleic acid analog. The polar hydrophobic nature [24] of the fluorine atom can positively alter the furanose conformation, basicity and/or

Degenerative xanthate transfer to olefins under visible-light photocatalysis

• Atsushi Kaga,
• Xiangyang Wu,
• Joel Yi Jie Lim,
• Hirohito Hayashi,
• Yunpeng Lu,
• Edwin K. L. Yeow and
• Shunsuke Chiba

Beilstein J. Org. Chem. 2018, 14, 3047–3058, doi:10.3762/bjoc.14.283

• absorption [28][29][30][31][32][33][34][35][36][37]. In the area of polymer synthesis, visible-light-induced RAFT polymerization of xanthates with vinyl monomers under blue LED (light-emitting diode) irradiation has been reported [38][39][40][41]. Visible-light-induced single unit monomer insertion of the

Stereodivergent approach in the protected glycal synthesis of L-vancosamine, L-saccharosamine, L-daunosamine and L-ristosamine involving a ring-closing metathesis step

• Pierre-Antoine Nocquet,
• Aurélie Macé,
• Frédéric Legros,
• Jacques Lebreton,
• Gilles Dujardin,
• Sylvain Collet,
• Arnaud Martel,
• Bertrand Carboni and
• François Carreaux

Beilstein J. Org. Chem. 2018, 14, 2949–2955, doi:10.3762/bjoc.14.274

• introduction of nitrogen in the convenient position (C3) could be performed by a stereopecific nitrene insertion reaction catalyzed by rhodium(II) complexes [24][25]. Herein, we describe our outcomes related to the implementation of this strategy for the synthesis of L-vancosamine derivative 1, as well as its

• data [9]. As an example, the expected protected glycal of L-daunosamine 3 [9][47] was obtained by regioselective rhodium nitrene insertion thus demonstrating the usefulness of this strategy for the synthesis of such compounds. Conclusion We developed an alternative route to 3-aminoglycals through ring

1,8-Bis(dimethylamino)naphthyl-2-ketimines: Inside vs outside protonation

• A. S. Antonov,
• A. F. Pozharskii,
• P. M. Tolstoy,
• A. Filarowski and
• O. V. Khoroshilova

Beilstein J. Org. Chem. 2018, 14, 2940–2948, doi:10.3762/bjoc.14.273

• (Figure S13 in Supporting Information File 1). The addition of a second OMe group in the case of 6 leads to the formation of 25% 6b’. Upon the insertion of a third OMe group in 7, the amount of 7b’ expectedly increases to 33%. Switching of the solvent to acetone-d6 facilitates the proton transfer away

Enhanced single-isomer separation and pseudoenantiomer resolution of new primary rim heterobifunctionalized α-cyclodextrin derivatives

• Iveta Tichá,
• Gábor Benkovics,
• Milo Malanga and
• Jindřich Jindřich

Beilstein J. Org. Chem. 2018, 14, 2829–2837, doi:10.3762/bjoc.14.261

• prepared the target 6A,6X-heterobifunctionalized α-CDs. Mesitylenesulfonyl was chosen as the appropriate functional group for insertion in the α-CD skeleton because it is sufficiently stable for reverse column chromatography and more sterically hindered than a tosyl group. The idea of attaching the

Cobalt- and rhodium-catalyzed carboxylation using carbon dioxide as the C1 source

• Tetsuaki Fujihara and
• Yasushi Tsuji

Beilstein J. Org. Chem. 2018, 14, 2435–2460, doi:10.3762/bjoc.14.221

• formed (step a) [42]. Then, the insertion of CO2 into the Co–C(sp3) bond occurs, and the seven-membered Co intermediate C is obtained (step b). The transmetalation of C with the Zn(II) species proceeds then to afford the alkenylzinc species D (step c). The subsequent two-electron reduction of D with Zn

• corresponding pyrone and the Rh(I) species A (step c). Alternatively, the oxidative cyclization of A proceeds as one of the C–C triple bonds of the diyne and CO2 react regioselectively, and rhodacycle D is subsequently formed (step d). Then, the insertion of the alkyne into the Rh–C bond occurs to give

Practical tetrafluoroethylene fragment installation through a coupling reaction of (1,1,2,2-tetrafluorobut-3-en-1-yl)zinc bromide with various electrophiles

• Ken Tamamoto,
• Shigeyuki Yamada and
• Tsutomu Konno

Beilstein J. Org. Chem. 2018, 14, 2375–2383, doi:10.3762/bjoc.14.213

• Ken Tamamoto Shigeyuki Yamada Tsutomu Konno Faculty of Molecular Chemistry and Engineering, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto 606-8585, Japan 10.3762/bjoc.14.213 Abstract (1,1,2,2-Tetrafluorobut-3-en-1-yl)zinc bromide was prepared by insertion of the zinc–silver couple

• variety of CF2CF2-containing molecules, and the results are described in this article (Scheme 1). Results and Discussion We carried out the optimization of the reaction conditions for the preparation of 2-Zn by direct zinc insertion into the CF2–Br bond of commercially available fluorinated substance 1

• . The results are summarized in Table 1. Initially, we attempted zinc insertion using a typical protocol [33], i.e., treating 1 with 2.0 equiv of zinc powder, pre-activated with dilute HCl solution, in DMF at 0 °C for 0.5 h. Unfortunately, no desired zinc insertion occurred and substrate 1 was

Hydroarylations by cobalt-catalyzed C–H activation

• Rajagopal Santhoshkumar and
• Chien-Hong Cheng

Beilstein J. Org. Chem. 2018, 14, 2266–2288, doi:10.3762/bjoc.14.202

• or a C–H activation with high-valent cobalt to give A2 via deprotonation, followed by migratory insertion and reductive elimination or protonation (Scheme 3). We believe that this review will be helpful to the researchers for their future research on hydroarylation using earth-abundant metal

• found intermolecular kinetic isotope effect (KIE) of kH/kD = 2.1 and H/D crossover studies strongly suggest that the reaction proceeds through an oxidative addition of a C–H bond to low-valent cobalt followed by alkyne insertion and reductive elimination. Furthermore, the new C–C bond formation occurred

• -products. Then, coordination of the alkyne with the cobalt catalyst afforded B1 and the oxidative addition of C–H gave the cobalt complex B2. Intramolecular insertion of the Co–H bond into the alkyne and subsequent reductive elimination of the less-hindered alkenyl carbon with aryl group in B3 provides the

Novel photochemical reactions of carbocyclic diazodiketones without elimination of nitrogen – a suitable way to N-hydrazonation of C–H-bonds

• Liudmila L. Rodina,
• Xenia V. Azarova,
• Jury J. Medvedev,
• Dmitrij V. Semenok and
• Valerij A. Nikolaev

Beilstein J. Org. Chem. 2018, 14, 2250–2258, doi:10.3762/bjoc.14.200

• , 3 Nobel st., Russia 10.3762/bjoc.14.200 Abstract The sensitized photoexcitation of 2-diazocyclopentane-1,3-diones in the presence of THF leads to the insertion of the terminal N-atom of the diazo group into the α-С–Н bond of THF, producing the associated N-alkylhydrazones in yields of up to 63–71

• with up to 90–97% yield. Keywords: C–H insertion; diazo compounds; excited state; photochemistry; Wolff rearrangement; Introduction Photochemical reactions of diazocarbonyl compounds are well-known transformations in the synthesis of the diversified acyclic, carbo- and heterocyclic structures [1][2

• ][30]. This photochemical process is assumed to proceed through the triplet excited states of diazoketones via ‘insertion’ of the terminal nitrogen atom of the diazo group into the С–Н bond of the organic substrates [27][30]. Hence it was principally demonstrated that by carefully varying the

Synthesis of new p-tert-butylcalix[4]arene-based polyammonium triazolyl amphiphiles and their binding with nucleoside phosphates

• Vladimir A. Burilov,
• Guzaliya A. Fatikhova,
• Mariya N. Dokuchaeva,
• Ramil I. Nugmanov,
• Diana A. Mironova,
• Pavel V. Dorovatovskii,
• Victor N. Khrustalev,
• Svetlana E. Solovieva and
• Igor S. Antipin

Beilstein J. Org. Chem. 2018, 14, 1980–1993, doi:10.3762/bjoc.14.173

• performed by the dye micellization method using pyrene and eosin Y (EY) as fluorescent and spectrophotometric probes, respectively (Table 1). The nonpolar pyrene can be incorporated into hydrophobic domains of the aggregates due to hydrophobic interactions. Pyrene insertion is measured by analyzing the

Synthesis and characterization of π–extended “earring” subporphyrins

• Haiyan Guan,
• Mingbo Zhou,
• Bangshao Yin,
• Ling Xu and
• Jianxin Song

Beilstein J. Org. Chem. 2018, 14, 1956–1960, doi:10.3762/bjoc.14.170

• detected in the very low field region. This indicates that the Pd is inserted in the cavity of 3 with the deprotonation of both N-H and meso-H. Meanwhile all signals belong to aromatic hydrogens shifted to a slightly higher field region after the complexation with Pd, which reveals that the insertion of

Diazirine-functionalized mannosides for photoaffinity labeling: trouble with FimH

• Femke Beiroth,
• Tomas Koudelka,
• Thorsten Overath,
• Stefan D. Knight,
• Andreas Tholey and
• Thisbe K. Lindhorst

Beilstein J. Org. Chem. 2018, 14, 1890–1900, doi:10.3762/bjoc.14.163

• insert into OH, NH, or CH groups of a protein in a fast reaction [5][6]. Further advantages of the diazirine group are its robustness at different pH values and its stability against nucleophiles. However, besides desired insertion reactions, carbenes can undergo unwanted side reactions, in particular

• diazirine 3, with scoring values of −34.7 (open gate) and −36.2 (closed gate), is predicted as suitable FimH ligand with high affinity. Additionally, docking suggests that the diazirine function of 3 is positioned in close proximity to the protein surface, making a specific insertion reaction of the carbene

• . However, purification of the photolabile mannosides is problematic due to their poor solubility and the light sensitivity of the diazirine moiety. Therefore, the products often contain minor impurities after chromatography resulting from light-induced activation of the diazirine and insertion reaction

Recent advances in hypervalent iodine(III)-catalyzed functionalization of alkenes

• Xiang Li,
• Pinhong Chen and
• Guosheng Liu

Beilstein J. Org. Chem. 2018, 14, 1813–1825, doi:10.3762/bjoc.14.154

• intermediate 75. Subsequently, this intermediate is attacked by the palladium catalyst under a CO atmosphere to form the alkyl palladium species 76. Finally, the reductive elimination at the iodine(III) center and CO insertion into the newly formed C–Pd bond, affords the oxycarbonylation products 74 (Scheme 21

Synthesis of diamido-bridged bis-pillar[5]arenes and tris-pillar[5]arenes for construction of unique [1]rotaxanes and bis-[1]rotaxanes

• Ying Han,
• Li-Ming Xu,
• Cui-Yun Nie,
• Shuo Jiang,
• Jing Sun and
• Chao-Guo Yan

Beilstein J. Org. Chem. 2018, 14, 1660–1667, doi:10.3762/bjoc.14.142

• afforded diamido-bridged bis-pillar[5]arenes. 1H NMR and 2D NOESY spectra clearly indicated that [1]rotaxanes were formed by insertion of longer diaminoalkylene unit into the cavity of one pillar[5]arene with another pillar[5]arene acting as a stopper. The similar catalysed amidation reaction of pillar[5

Cobalt-catalyzed C–H cyanations: Insights into the reaction mechanism and the role of London dispersion

• Eric Detmar,
• Valentin Müller,
• Daniel Zell,
• Lutz Ackermann and
• Martin Breugst

Beilstein J. Org. Chem. 2018, 14, 1537–1545, doi:10.3762/bjoc.14.130

• , ligand coordination, insertion) shown in Scheme 2 which served as the starting point of this investigation [30]. We now report on our computational findings supported by novel kinetic investigations to establish the reaction mechanism of this synthetically useful C–H activation and to elucidate the role

• -electron intermediate 8a yielding 9a. Next, the insertion of the cyanating agent 2a into the cobalt–carbon bond takes place through TS3a. Within the four-membered transition state (Figure 2), the C–C bond to be formed is still rather long (C–C distance 1.92 Å), while the C–N distance is already

• the desired transformation. As the calculated rate-limiting transition state TS3 benefits from a stabilization of the developing negative charge on the sulfonamide, the relative rates of Scheme 3 provide further support for the migratory insertion representing the rate determining step [44]. As

Hypervalent organoiodine compounds: from reagents to valuable building blocks in synthesis

• Gwendal Grelier,
• Benjamin Darses and
• Philippe Dauban

Beilstein J. Org. Chem. 2018, 14, 1508–1528, doi:10.3762/bjoc.14.128

• catalyzed cascade reaction to afford alkylidenefluorenes 49 (Scheme 17) [57]. In terms of mechanism, a Pd(0)/Cu(I)-catalyzed Sonogashira coupling reaction from the iodonium salt 48 delivers a 2-alkynyl-2’-iodoarene 50 that, then, cyclizes to 51 via insertion of the Pd(0) species into the iodoarene moiety

Oligonucleotide analogues with cationic backbone linkages

• Melissa Meng and
• Christian Ducho

Beilstein J. Org. Chem. 2018, 14, 1293–1308, doi:10.3762/bjoc.14.111

• , respectively, upon the insertion of base mismatches in the DNA counterstrand. Analyzing a 2:1 complex formed from two octameric thymidinyl DNG strands and one native DNA A8-mer, they concluded that base mismatches at either end of the DNA counterstrand sequence do not hamper hybridization as strongly as a

Atom-economical group-transfer reactions with hypervalent iodine compounds

• Andreas Boelke,
• Peter Finkbeiner and
• Boris J. Nachtsheim

Beilstein J. Org. Chem. 2018, 14, 1263–1280, doi:10.3762/bjoc.14.108

• the sulfonimidamide 31 in the presence of the chiral rhodium(II) catalyst A. Hereby, one equivalent of iodoarene 2 is released. The insertion of the nitrene species into the C(sp3)–H bond affords the amination product C, which is the final product of the first reaction step. In the following step, C

One hundred years of benzotropone chemistry

• Arif Dastan,
• Haydar Kilic and
• Nurullah Saracoglu

Beilstein J. Org. Chem. 2018, 14, 1120–1180, doi:10.3762/bjoc.14.98

• tropone unit: In 1975, Franck-Neumann and Martina reported the reaction of dimethyl diazomethane with tropone and benzotropones [83]. This reaction gave benzo-4,5-dimethyl-8,8-cyclooctatrienone (94, 30% isolable yield) as an insertion product via a carbonyl group and pyrazoline 95 as 1,3-dipolar addition

• unit: The ring-expansion product 188, which is a net insertion of a diazomethane unit into the tropone, was prepared from the reaction of 2,3-benzotropone (12) with dimethyl diazomethane (Figure 7) [83]. Benzohomoazocines 191–193 and benzomethoxyazocines 195–197 were prepared using a similar protocol

An overview of recent advances in duplex DNA recognition by small molecules

• Sayantan Bhaduri,
• Nihar Ranjan and
• Dev P. Arya

Beilstein J. Org. Chem. 2018, 14, 1051–1086, doi:10.3762/bjoc.14.93

• discovered and designed to competitively inhibit such interactions. Additionally, molecules that are capable of insertion between the DNA base pairs can also disfavor DNA–protein interactions directly or allosterically. Consequently, small molecule DNA binders have been in the limelight of drug-discovery

• are reports of natural and designed molecules that display multivalency in DNA recognition by binding at more than recognition sites (minor groove, major groove or base pair insertion) [11][12][13]. In synthetic multivalent ligands, which are made to enhance DNA affinity, tether length and composition

Correlation effects and many-body interactions in water clusters

• Andreas Heßelmann

Beilstein J. Org. Chem. 2018, 14, 979–991, doi:10.3762/bjoc.14.83

• to the three-body interaction energy Δ3(ABC). According to the three different possible pseudodimers, see Equation 12, one can extract the following three terms: Recall that using the supermolecule method the term Δ3(AB − C) is given by Δ3(AB − C) = E(ABC) − E(AB) − E(C). An insertion of the

Methyl isocyanide as a convertible functional group for the synthesis of spirocyclic oxindole γ-lactams via post-Ugi-4CR/transamidation/cyclization in a one-pot, three-step sequence

• Amarendar Reddy Maddirala and
• Peter R. Andreana

Beilstein J. Org. Chem. 2018, 14, 875–883, doi:10.3762/bjoc.14.74

• thought of as a synthetic equivalent to ‘CO’ for insertion into the 2-indolinone backbone (shown in Scheme 1). To further elaborate on this observation and for understanding the role of methyl isocyanide as a CIC, we designed an efficient synthetic strategy for spiro[indoline-3,2'-pyrrole]-2,5'(1'H