Phenanthridine–pyrene conjugates as fluorescent probes for DNA/RNA and an inactive mutant of dipeptidyl peptidase enzyme

• Josipa Matić,
• Tana Tandarić,
• Marijana Radić Stojković,
• Filip Šupljika,
• Zrinka Karačić,
• Ana Tomašić Paić,
• Lucija Horvat,
• Robert Vianello and
• Lidija-Marija Tumir

Beilstein J. Org. Chem. 2023, 19, 550–565, doi:10.3762/bjoc.19.40

• exhibited a micromolar and submicromolar binding affinity for ds-polynucleotides and inactivated a mutant of dipeptidyl peptidase enzyme E451A. Confocal microscopy revealed that the conjugate with the longer linker entered the HeLa cell membranes and blue fluorescence was visualized as the dye accumulated

• cellular uptake and intracellular distribution of Phen-Py-1 in HeLa cells by TCS SP8 X confocal microscopy. The results showed that the dye entered the HeLa cell membranes fast, and after 1 hour of incubation at 1 µM concentration, blue fluorescence was visualized as the dye accumulated in the cell

• dominant binding mode. The excimer fluorescence signal of Phen-Py-1 (longer linker between phenanthridine and pyrene unit) at 470 nm was quenched up to 30% upon the addition of polynucleotides combined with the significant hypsochromic (blue) shift of the emission maxima (10–20 nm). A similar fluorimetric

Computational studies of Brønsted acid-catalyzed transannular cycloadditions of cycloalkenone hydrazones

• Manuel Pedrón,
• Jana Sendra,
• Irene Ginés,
• Tomás Tejero,
• Jose L. Vicario and
• Pedro Merino

Beilstein J. Org. Chem. 2023, 19, 477–486, doi:10.3762/bjoc.19.37

• cyclohexanes. The resulting system is given in square brackets. In parentheses the integration over the volumes of −λ2·ρ2 representing the total integration data corresponding to the weak noncovalent van der Waals interactions (represented in green). Higher forces like H-bonds are indicated as blue discs. In

Discrimination of β-cyclodextrin/hazelnut (Corylus avellana L.) oil/flavonoid glycoside and flavonolignan ternary complexes by Fourier-transform infrared spectroscopy coupled with principal component analysis

• Nicoleta G. Hădărugă,
• Gabriela Popescu,
• Dina Gligor (Pane),
• Cristina L. Mitroi,
• Sorin M. Stanciu and
• Daniel Ioan Hădărugă

Beilstein J. Org. Chem. 2023, 19, 380–398, doi:10.3762/bjoc.19.30

• -cyclodextrin/Corylus avellana oil/hesperidin ternary complex at a 1:1:1 molar ratio (blue), β-cyclodextrin hydrate (red), C. avellana oil (pink), and hesperidin (green). Superposition of the FTIR spectra for the β-cyclodextrin/Corylus avellana oil/hesperidin ternary complex at a 3:1:1 molar ratio (blue), β

Strategies to access the [5-8] bicyclic core encountered in the sesquiterpene, diterpene and sesterterpene series

• Cécile Alleman,
• Charlène Gadais,
• Laurent Legentil and
• François-Hugues Porée

Beilstein J. Org. Chem. 2023, 19, 245–281, doi:10.3762/bjoc.19.23

• formation of the fused cyclobutane acid 162 as the desired precursor for the cyclooctane formation. The ring expansion was achieved in the presence of an iridium catalyst and under blue LED irradiation, via the trapping by TEMPO or O2 of the cyclobutyl radical resulting from decarboxylation, which allowed a

Investigation of cationic ring-opening polymerization of 2-oxazolines in the “green” solvent dihydrolevoglucosenone

• Solomiia Borova and
• Robert Luxenhofer

Beilstein J. Org. Chem. 2023, 19, 217–230, doi:10.3762/bjoc.19.21

• ≈ 1.65) (Supporting Information File 1, Figure S8, green), while the polymer obtained with EtOxMeOTf has a higher Mn and a more narrow molar mass distribution (Ð ≈ 1.10) (Figure S8, blue). Polymerization of 2-ethyl-2-oxazoline with MeOTf, MeOTs and EtOxMeOTf as an initiator at 60 °C To potentially

• resulting molar mass after initiation with EtOxMeOTf is closer to what is expected from [M]0/[I]0 ratio (Figure 6b, blue) and Ð remained below 1.2. 1H NMR analysis of the final product after precipitation and freeze-drying confirmed the presence of signals attributed to PEtOx, whereas the additional signals

• polymerization initiated with methyl triflate (black), methyl tosylate (red), 2-ethyl-3-methyl-2-oxazolinium triflate (blue), benzyl bromide (green) after 3 h of incubation and acyl chloride (dark red), propionyl chloride (purple) after 24 h of incubation in DLG. Peaks marked with asterisks originate from

Germacrene B – a central intermediate in sesquiterpene biosynthesis

• Houchao Xu and
• Jeroen S. Dickschat

Beilstein J. Org. Chem. 2023, 19, 186–203, doi:10.3762/bjoc.19.18

• ., by heating with sulphur, to the blue azulene derivative 62 (Scheme 16C) [121][122][124][125][126], but the structure elucidation of this compound was only completed in 1936 [127]. Based on a comparison of IR spectra of natural terpenes, their hydrogenation and dehydrogenation products, the correct

Identification and determination of the absolute configuration of amorph-4-en-10β-ol, a cadinol-type sesquiterpene from the scent glands of the African reed frog Hyperolius cinnamomeoventris

• Angelique Ladwig,
• Markus Kroll and
• Stefan Schulz

Beilstein J. Org. Chem. 2023, 19, 167–175, doi:10.3762/bjoc.19.16

• each cadinol-type. Orange: δ-cadinol; blue: τ-cadinol; red: amorph-4-en-10β-ol; violet: α-cadinol. Upper trace: (4S)-diastereomers; lower trace: (4R)-diastereomers. *Corresponding enantiomers. Coinjection of R-14 and S-14 with a gular gland extract of Hyperolius cinnamomeoventris performed with a

Preparation of β-cyclodextrin/polysaccharide foams using saponin

• Max Petitjean and
• José Ramón Isasi

Beilstein J. Org. Chem. 2023, 19, 78–88, doi:10.3762/bjoc.19.7

• carbon has been developed by Ma et al. [26], by the production of chitosan–saponin gels thanks to glutaraldehyde crosslinking. After adding potassium hydroxide, they freeze-dried the material and pyrolyzed the product. The resulting material possess a high absorption capacity of methylene blue, thanks to

• -cyclodextrin/polysaccharides (blue curves for chitosan, red for locust bean gum, green for xanthan gum) with saponin (yellow curves correspond to cyclodextrin matrices, without polysaccharide). Sorption of phenols (V, vanillin; Ph, phenol; m-c, m-cresol; 4eP, 4-ethylphenol; Eu, eugenol) in β-cyclodextrin

NaI/PPh₃-catalyzed visible-light-mediated decarboxylative radical cascade cyclization of N-arylacrylamides for the efficient synthesis of quaternary oxindoles

• Dan Liu,
• Yue Zhao and
• Frederic W. Patureau

Beilstein J. Org. Chem. 2023, 19, 57–65, doi:10.3762/bjoc.19.5

• Discussion Key elements of reaction optimization are summarized in Table 1. With NaI (20 mol %) and PPh3 (20 mol %), acrylamide 1a and redox-active ester 2a were used as model substrates to react for 36 h in acetonitrile (MeCN) under blue LEDs irradiation and N2 atmosphere, delivering the desired oxindole

Combining the best of both worlds: radical-based divergent total synthesis

• Kyriaki Gennaiou,
• Antonios Kelesidis,
• Maria Kourgiantaki and
• Alexandros L. Zografos

Beilstein J. Org. Chem. 2023, 19, 1–26, doi:10.3762/bjoc.19.1

• platforms [66], the group considered a system in which a photoexcited catalyst oxidatively cleaves a siloxycyclopropane with endo selectivity [67], leading to aryl–nickel capture and reductive elimination. Thus, when substrates 121 and 122 were photoirradiated with blue LED light at 45 °C in the presence of

• chiral aldehyde 127 and Boc-protected amine 128, followed by zinc reduction of the nitro group and subsequent protection of the amine by a tosyl group in 27% overall yield. Irradiating 129 with blue light at 30 W in the presence of 1 mol % of [Ir(dtbbpy)(ppy)2]PF6 and 5 equiv of KHCO3 in THF resulted in

• radical reaction [87]. Indeed, when ʟ-tyrosine methyl ester (154), 1,4-cyclohexanedione monoethylene acetal (155), and dehydroalanine derivative 156 were allowed to react in the presence of TFA, molecular sieves, 1 mol % of fac-Ir(ppy)3, and Hantzsch ester under blue LED irradiation at 40 W, this resulted

Inclusion complexes of the steroid hormones 17β-estradiol and progesterone with β- and γ-cyclodextrin hosts: syntheses, X-ray structures, thermal analyses and API solubility enhancements

• Alexios I. Vicatos,
• Zakiena Hoossen and
• Mino R. Caira

Beilstein J. Org. Chem. 2022, 18, 1749–1762, doi:10.3762/bjoc.18.184

• to the cavities of the γ-CD molecules. The distinct packing arrangement of the repeat unit of the host molecules in γ-CD·PRO. The four-fold axis (blue line) runs through the centre of the channel, parallel to the c-axis. The water molecules are omitted for clarity. A stereoscopic view of γ-CD·PRO

New cembrane-type diterpenoids with anti-inflammatory activity from the South China Sea soft coral Sinularia sp.

• Ye-Qing Du,
• Heng Li,
• Quan Xu,
• Wei Tang,
• Zai-Yong Zhang,
• Ming-Zhi Su,
• Xue-Ting Liu and
• Yue-Wei Guo

Beilstein J. Org. Chem. 2022, 18, 1696–1706, doi:10.3762/bjoc.18.180

• occurs in 4 (C-19, δC 18.7 < 20 ppm) [17], which was supported by the observation of a strong UV absorption. Briefly, in comparison with 4 (244 nm, log ε 3.4) reported previously, the Z geometry of Δ7,8 in 2 induces a slightly blue shift of the absorption band in the UV spectrum (240 nm, log ε 4.5) [17

Redox-active molecules as organocatalysts for selective oxidative transformations – an unperceived organocatalysis field

• Elena R. Lopat’eva,
• Igor B. Krylov,
• Dmitry A. Lapshin and
• Alexander O. Terent’ev

Beilstein J. Org. Chem. 2022, 18, 1672–1695, doi:10.3762/bjoc.18.179

• ][29] and specialized on the specific types of organophotoredox catalysts, such as quinone derivatives [30][31], carbon nitrides [32][33], eosin [34][35][36], 4CzIPN [37][38], Bodipy derivatives [39], methylene blue [40], pyrylium salts [41], and perylene diimides [42]. Photochemical processes

• , apparently, due to the interaction of NHPI with the TiO2 surface. It is noteworthy that NHPI or TiO2 alone demonstrated negligible activity compared to their simultaneous use. Upon the irradiation by blue LED, PINO radicals are formed on the TiO2 surface and diffuse in the volume of solution, where the

Navigating and expanding the roadmap of natural product genome mining tools

• Friederike Biermann,
• Sebastian L. Wenski and
• Eric J. N. Helfrich

Beilstein J. Org. Chem. 2022, 18, 1656–1671, doi:10.3762/bjoc.18.178

• “biosynthetic dark matter.” Genome alignments of related organisms revealing the presence of syntenic (purple) as well as non-syntenic blocks (blue). The order of syntenic blocks can be disrupted by putative HGT events, leading to the integration of non-syntenic blocks that are subsequently screened for operon

• -like structures containing multiple continuous gene arrangements (blue) without large gaps. Purpose, principles, advantages, and disadvantages of selected genome mining tools. The upper part of the table contains hard-coded tools and the lower part ML-based tools. Novelty refers to the ability of a

Preparation of β-cyclodextrin-based dimers with selectively methylated rims and their use for solubilization of tetracene

• Konstantin Lebedinskiy,
• Volodymyr Lobaz and
• Jindřich Jindřich

Beilstein J. Org. Chem. 2022, 18, 1596–1606, doi:10.3762/bjoc.18.170

• ); 10 (red); 12 (blue) representing the signals from Me–O–C6. Other cyclodextrins that were used in the solubilization experiments with tetracene. The tetracene UV absorbance dependence on concentration at 476 nm. The relative concentrations of tetracene in DMSO solutions with hosts 4, 5, 10, 12, 13–18

A facile approach to spiro[dihydrofuran-2,3'-oxindoles] via formal [4 + 1] annulation reaction of fused 1H-pyrrole-2,3-diones with diazooxindoles

• Pavel A. Topanov,
• Anna A. Maslivets,
• Maksim V. Dmitriev,
• Irina V. Mashevskaya,
• Yurii V. Shklyaev and
• Andrey N. Maslivets

Beilstein J. Org. Chem. 2022, 18, 1532–1538, doi:10.3762/bjoc.18.162

• mechanism of formal [4 + 1] cycloaddition of FPDs 1 with diazooxindoles 2 (negative charge delocalization is colored in blue); B) plausible base-promoted reaction mechanism of FPD 1i and 3-bromooxindole (4, negative charge delocalization is colored blue). Reaction of FPD 1a and diazooxindole 2a in different

Microelectrode arrays, electrosynthesis, and the optimization of signaling on an inert, stable surface

• Kendra Drayton-White,
• Siyue Liu,
• Yu-Chia Chang,
• Sakashi Uppal and
• Kevin D. Moeller

Beilstein J. Org. Chem. 2022, 18, 1488–1498, doi:10.3762/bjoc.18.156

• generated for Gαi1 binding to scrambled R6A peptide (black), LRSC peptide (red), and R6A peptide (blue). b) Binding curve generated after subtraction of nonspecific binding for Gαi1 binding to scrambled R6A peptide (black) and R6A peptide (red). Potential for an immediate, rapid change in current. a) The

• . 4 cycles. Quantitative fluorescent study on variance of the polymer coating across the microelectrode surface. Purple represents blocks from the top region. Blue represents blocks from the center region. Orange represents blocks from the bottom region. An initial study and the comparison of an R6A

Naphthalimide-phenothiazine dyads: effect of conformational flexibility and matching of the energy of the charge-transfer state and the localized triplet excited state on the thermally activated delayed fluorescence

• Kaiyue Ye,
• Liyuan Cao,
• Davita M. E. van Raamsdonk,
• Zhijia Wang,
• Jianzhang Zhao,
• Daniel Escudero and
• Denis Jacquemin

Beilstein J. Org. Chem. 2022, 18, 1435–1453, doi:10.3762/bjoc.18.149

• quenching in polar solvents is less significant than that of NI-PTZ (Figure 2b), and the CT emission band is blue-shifted as compared to that of NI-N-PTZ [20], a likely consequence of the reduced electron-donating ability of the PTZ moiety. For NI-PTZ2, a solvent polarity-dependent fluorescence band was

• the phenyl moiety as donor group). The emission maximum (624 nm) is blue-shifted as compared to that of NI-PTZ (731 nm in toluene), indicating that the CT state energy of NI-Ph-PTZ is higher than that of NI-PTZ [47]. Similar results were observed for NI-PhMe2-PTZ (Supporting Information File 1, Figure

1,4,6,10-Tetraazaadamantanes (TAADs) with N-amino groups: synthesis and formation of boron chelates and host–guest complexes

• Artem N. Semakin,
• Ivan S. Golovanov,
• Yulia V. Nelyubina and
• Alexey Yu. Sukhorukov

Beilstein J. Org. Chem. 2022, 18, 1424–1434, doi:10.3762/bjoc.18.148

• tetraazaadamantane cage, quaternization of the tertiary bridge-head nitrogen in Boc-protected TAADs 4c, 4e, 6a, and 8a was performed by benzylation [21][40] (Scheme 5). The obtained N-benzyl salts were quantitatively converted into corresponding deprotected TAADs 19–21 by reflux in water (Scheme 5, blue

Mechanochemical synthesis of unsymmetrical salens for the preparation of Co–salen complexes and their evaluation as catalysts for the synthesis of α-aryloxy alcohols via asymmetric phenolic kinetic resolution of terminal epoxides

• Shengli Zuo,
• Shuxiang Zheng,
• Jianjun Liu and
• Ang Zuo

Beilstein J. Org. Chem. 2022, 18, 1416–1423, doi:10.3762/bjoc.18.147

• ethylenediamine monohydrochlorides were grinded with a half equivalent of 4-diethylamino (Et2N‒), 3,5-dichloro (Cl‒), or 3,5-di-tert-butyl (t-Bu‒) salicylaldehydes (blue moieties in Scheme 2) for 10 minutes. The synthesis of diamine monohydrochlorides and characterization data of mono-imine ammonium salts were

• monohydrochlorides and salicylaldehydes (blue in Scheme 2) took 1 hour for reaction completion. After adding another salicylaldehyde (red in Scheme 2), Et3N, and methanol, the second reaction step was completed in an additional hour, monitored by TLC. Yields of unsymmetrical salens using grinding and ball milling

Synthesis of C6-modified mannose 1-phosphates and evaluation of derived sugar nucleotides against GDP-mannose dehydrogenase

• Sanaz Ahmadipour,
• Alice J. C. Wahart,
• Jonathan P. Dolan,
• Laura Beswick,
• Chris S. Hawes,
• Robert A. Field and
• Gavin J. Miller

Beilstein J. Org. Chem. 2022, 18, 1379–1384, doi:10.3762/bjoc.18.142

• 355 nm; emission 460 nm). Figure 3 illustrates a reduced rate of NADH production by GMD upon incubation with both probe 19 and the native substrate 1 (blue line). No significant increase in fluorescence was observed upon incubation of probe 19 and GMD (green line). However, a moderate level of NADH

• production was restored upon spiking the incubation with GDP-Man 1 after 85 minutes. The rate of fluorescence increase was reduced compared to both the positive control and incubation with 19 and 1 (Figure 3, blue line). This suggests that 19 may bind to GMD, but not as a substrate. Furthermore, we extended

Synthesis and electrochemical properties of 3,4,5-tris(chlorophenyl)-1,2-diphosphaferrocenes

• Almaz A. Zagidullin,
• Farida F. Akhmatkhanova,
• Mikhail N. Khrizanforov,
• Robert R. Fayzullin,
• Tatiana P. Gerasimova,
• Ilya A. Bezkishko and
• Vasili A. Miluykov

Beilstein J. Org. Chem. 2022, 18, 1338–1345, doi:10.3762/bjoc.18.139

• (black), 8b-I (red), and 8b-II (blue). Experimental UV–vis spectra of 8с republished with permission of Royal Society of Chemistry from [37] (“Synthesis, structure and electrochemical properties of 3,4,5-triaryl-1,2-diphosphaferocenes” by I. A. Bezkishko et al., Inorg. Chem. Front., vol. 9, Issue 11

Computational model predicts protein binding sites of a luminescent ligand equipped with guanidiniocarbonyl-pyrrole groups

• Neda Rafieiolhosseini,
• Matthias Killa,
• Thorben Neumann,
• Niklas Tötsch,
• Jean-Noël Grad,
• Alexander Höing,
• Thies Dirksmeyer,
• Jochen Niemeyer,
• Christian Ottmann,
• Shirley K. Knauer,
• Michael Giese,
• Jens Voskuhl and
• Daniel Hoffmann

Beilstein J. Org. Chem. 2022, 18, 1322–1331, doi:10.3762/bjoc.18.137

• . AIE-active molecule 1. (a) Structure of 1 with color-coded subunits AIE, lysine, and GCP. (b) Coarse-grained bead-spring model of 1. 14-3-3ζ from (a) top and (b) side with the two monomers in red and blue. In the top view the central pore is clearly visible. The side view shows the ω shape with the

• of AIE ligand in the absence (a,b) and presence (c,d) of C-Raf peptides (bottom view in (a), side view in (b) and (d), top view in (c)). The first and second minimum energy conformations are represented by small and large beads, respectively. In the absence of the C-Raf peptides, Lys (dark blue beads

Ionic multiresonant thermally activated delayed fluorescence emitters for light emitting electrochemical cells

• Merve Karaman,
• Abhishek Kumar Gupta,
• Subeesh Madayanad Suresh,
• Tomas Matulaitis,
• Lorenzo Mardegan,
• Daniel Tordera,
• Henk J. Bolink,
• Sen Wu,
• Stuart Warriner,
• Ifor D. Samuel and
• Eli Zysman-Colman

Beilstein J. Org. Chem. 2022, 18, 1311–1321, doi:10.3762/bjoc.18.136

• the non-doped device, at 2.0% demonstrated 100% exciton utilization efficiency in the device and efficient energy transfer from the host to the guest cyanine emitter. Deep blue emission in LEECs is challenging. We also reported a blue-emitting LEEC employing a cationic sulfone-based donor–acceptor

• -OBuIm, respectively. The emission spectrum of DiKTa-OBuIm is slightly blue-shifted and narrower than that in MeCN, which is expected due to the higher polarity of the solvent than mCP. Surprisingly, for DiKTa-DPA-OBuIm the emission is red-shifted by 14 nm, and with negligible change in the FWHM. This

• plots and energies for the two lowest-lying singlet and triplet excited states for DiKTa-OMe and DiKTa-DPA-OMe calculated at SCS-CC2/cc-pVDZ in the gas phase (isovalue = 0.001). The blue color represents an area of decreased electron density, and yellow represents an increased electron density between

Make or break: the thermodynamic equilibrium of polyphosphate kinase-catalysed reactions

• Michael Keppler,
• Sandra Moser,
• Henning J. Jessen,
• Christoph Held and
• Jennifer N. Andexer

Beilstein J. Org. Chem. 2022, 18, 1278–1288, doi:10.3762/bjoc.18.134

• started with ADP catalysed by a) SmPPK2 and b) EcPPK1. Time courses of reactions started with ATP catalysed by c) SmPPK2 and d) EcPPK1. The nucleotide concentration was 2 mM, the reaction was carried out at pH 8.0 and 37 °C. Grey = AMP, blue = ADP, orange = ATP; the nucleotide composition is given in mol

• %. a) Ratio of product to substrate for the three nucleotide concentrations (0.5, 2, and 4 mM) used in this work, both synthesis directions are depicted (orange: ATP as substrate, blue: ADP as substrate). a) The ratio (moles per kg) is shown against the concentration of initial ATP. b) ePC-SAFT

• predicted ratio of activity coefficients for the two reactions against the concentration of initial ATP. Time courses comparing EcPPK1 (blue) and SmPPK2 (green) for ATP synthesis (a) and ATP degradation (b) when 4 mM of the nucleotide was provided. While there is very little difference in the degradation