Stereoselective synthesis and transformation of pinane-based 2-amino-1,3-diols

• Ákos Bajtel,
• Mounir Raji,
• Matti Haukka,
• Ferenc Fülöp and
• Zsolt Szakonyi

Beilstein J. Org. Chem. 2021, 17, 983–990, doi:10.3762/bjoc.17.80

• , POB 35, 40351 Jyväskylä, Finland Stereochemistry Research Group of the Hungarian Academy of Sciences, H-6720 Szeged, Eötvös u. 6, Hungary, Interdisciplinary Centre of Natural Products, University of Szeged, Szeged, Hungary 10.3762/bjoc.17.80 Abstract A library of pinane-based 2-amino-1,3-diols was

• transformations of pinane-based 2-amino-1,3-diols To obtain a library of pinane-based 2-amino-1,3-diols, the oxazolidine-2-ones 9 and 12 were applied as starting materials. The alkaline hydrolysis of both 9 and 12 resulted in the same primary aminodiol 13 [38]. According to the NMR spectra and other physical and

• -diols was recently reported [31]. When compound 21A or 21B were treated in less protic solvents such as DMSO-d6 or CD3OD, tautomerization was not observed. Conclusion A small library of pinane-based 2-amino-1,3-diols was synthesized in a stereoselective manner starting from (1R)-(−)-myrtenol and

Application of the Meerwein reaction of 1,4-benzoquinone to a metal-free synthesis of benzofuropyridine analogues

• Rashmi Singh,
• Tomas Horsten,
• Rashmi Prakash,
• Swapan Dey and
• Wim Dehaen

Beilstein J. Org. Chem. 2021, 17, 977–982, doi:10.3762/bjoc.17.79

• expand the library of derivatives containing core structure 13, electrophilic aromatic substitution of this compound was explored (Scheme 2). Nitration of 13 using 70% nitric acid in glacial acetic acid gave the corresponding regioisomers 14 and 15 in 53% and 41% isolated yield, respectively. The 1H NMR

Enhanced target cell specificity and uptake of lipid nanoparticles using RNA aptamers and peptides

• Roslyn M. Ray,
• Anders Højgaard Hansen,
• Maria Taskova,
• Bernhard Jandl,
• Jonas Hansen,
• Citra Soemardy,
• Kevin V. Morris and
• Kira Astakhova

Beilstein J. Org. Chem. 2021, 17, 891–907, doi:10.3762/bjoc.17.75

• exponential enrichment (SELEX) [30]. SELEX is an iterative process that begins with a large oligonucleotide library that, through a process of negative and positive selections, ends with a few candidates that are specific for a particular protein [30][31]. Using HIV-1 as our model, we explored the use of two

Microwave-assisted multicomponent reactions in heterocyclic chemistry and mechanistic aspects

• Shivani Gulati,
• Stephy Elza John and
• Nagula Shankaraiah

Beilstein J. Org. Chem. 2021, 17, 819–865, doi:10.3762/bjoc.17.71

• longer reaction time (3 h) with lower yields (60%) as compared to microwave (20 min with 91% yield). The library of molecules synthesized was found to be active against SKOV-3 cancer cells with 9a emerging as a promising molecule with IC50 = 0.24 ± 0.05 μM (Scheme 3). The protocol surfaces the efficiency

• of MWA-MCR in the construction of fused polycycles with functional diversity for the generation of a library of pharmacologically active molecules. The construction of fused annulated rings are seldomly reported often achieved by a sequential addition approach [40]. Contributing to the same and

• co-workers [50] demonstrated an aqueous phase, diastereoselective, multicomponent reaction involving substituted isatins 35, β-nitrostyrene 36 and benzylamine (20) or α-amino acids 37 using microwave irradiation to afford a library of spirooxindoles 38 in good yields under catalyst-free conditions

Effective microwave-assisted approach to 1,2,3-triazolobenzodiazepinones via tandem Ugi reaction/catalyst-free intramolecular azide–alkyne cycloaddition

• Maryna O. Mazur,
• Oleksii S. Zhelavskyi,
• Eugene M. Zviagin,
• Svitlana V. Shishkina,
• Vladimir I. Musatov,
• Maksim A. Kolosov,
• Elena H. Shvets,
• Anna Yu. Andryushchenko and
• Valentyn A. Chebanov

Beilstein J. Org. Chem. 2021, 17, 678–687, doi:10.3762/bjoc.17.57

• complex scaffold in just two steps. Unusually, the azide–alkyne cycloaddition for both terminal and non-terminal alkynes was effective under catalyst-free conditions while normally for non-terminal alkynes a ruthenium-based catalysis is required. Using the developed method, a library of 22 target

• compounds was obtained. Currently, we are working on testing some library representatives for their biological activity. Benzodiazepine-based azolo-containing drugs. Novel potential 1,2,3-triazolobenziadiazepine drugs. Code legend for Ugi products 6 and molecular structure (X-ray analysis) of compound 6aaa

Synthesis of (Z)-3-[amino(phenyl)methylidene]-1,3-dihydro-2H-indol-2-ones using an Eschenmoser coupling reaction

• Lukáš Marek,
• Lukáš Kolman,
• Jiří Váňa,
• Jan Svoboda and
• Jiří Hanusek

Beilstein J. Org. Chem. 2021, 17, 527–539, doi:10.3762/bjoc.17.47

• the present paper, we want to describe an optimized procedure avoiding the intermediary thiazoles and to demonstrate the usefulness and wide group tolerability of our new synthetic approach for the preparation of a library of substituted phenyl and amino derivatives (Table 1). A number of the

The synthesis of chiral β-naphthyl-β-sulfanyl ketones via enantioselective sulfa-Michael reaction in the presence of a bifunctional cinchona/sulfonamide organocatalyst

• Deniz Tözendemir and
• Cihangir Tanyeli

Beilstein J. Org. Chem. 2021, 17, 494–503, doi:10.3762/bjoc.17.43

•  1). This new organocatalyst was employed in the model asymmetric sulfa-Michael reaction of naphthalene-1-thiol and trans-chalcone, in addition to the amino-substituted DMAP and quinine-based organocatalysts (6, 7a–c and 8a–c) in our library (Figure 1), as well as previously reported quinine derived

Synthetic strategies of phosphonodepsipeptides

• Jiaxi Xu

Beilstein J. Org. Chem. 2021, 17, 461–484, doi:10.3762/bjoc.17.41

• and oxidation with sodium periodate, benzyl 2-azido-3-(((benzyloxy)(2-oxoethyl)phosphoryl)oxy)-2-methylpropanoate (69) was obtained. The latter was further transformed to the final phosphonodepsipeptide library 64 after the reductive amination with pyrrolidine derivatives 70 and acylation with a

• library of carboxylic acids 72 in the presence of coupling reagents (Scheme 11) [27]. Alternatively, the 1,3-protected glycerol 73 was first converted into various 2,3-protected glycerols 74, which were further transformed to methyl 2-alkoxy-3-hydroxypropanoates 75. Following a similar strategy as above

• , another library of phosphonodepsipeptides 78 was prepared (Scheme 12) [27]. Synthesis of γ-phosphonodepsipeptides γ-Phosphonodepsipeptides 79 have been prepared from N-Cbz-ʟ-glutamic acid (80) and diethyl 2-hydroxyglutarate (84). To prepare phosphorus analogues of γ-glutamyl peptide, the starting N-Cbz-ʟ

Identification of volatiles from six marine Celeribacter strains

• Anuj Kumar Chhalodia,
• Jan Rinkel,
• Dorota Konvalinkova,
• Jörn Petersen and
• Jeroen S. Dickschat

Beilstein J. Org. Chem. 2021, 17, 420–430, doi:10.3762/bjoc.17.38

• mass spectra to library spectra and of retention indices [38] to tabulated literature data (Table 1), or by a direct comparison to authentic standards. The structures of the identified compounds are shown in Figure 2. While the headspace extracts from C. marinus, C. neptunius and C. manganoxidans were

• 41 showed strong similarities to the library mass spectrum of 2-mercaptobenzothiazole that has a molecular weight of 167 Da. The isotope pattern of the molecular ion at m/z = 213 indicated the presence of three sulfur atoms. The strong base peak at m/z = 167 in the mass spectrum of 41 suggested a

Coupling biocatalysis with high-energy flow reactions for the synthesis of carbamates and β-amino acid derivatives

• Alexander Leslie,
• Thomas S. Moody,
• Megan Smyth,
• Scott Wharry and
• Marcus Baumann

Beilstein J. Org. Chem. 2021, 17, 379–384, doi:10.3762/bjoc.17.33

• library of these versatile carbamate building blocks (3, ca. 1 mmol scale), we decided to apply a scavenger column to perform in-line purification. This was achieved as previously reported [22] based on a mixture of Amberlyst A21 (a tertiary amine, ca. 2 equiv) and Amberlyst A15 (a sulfonic acid, ca. 2

• purification of a small library of valuable Cbz-carbamates (see Figure 1). Furthermore, the CALB column was effectively used over several days after purging with toluene to prevent cross contamination. The scale-up of this flow process was demonstrated on a 100 mmol scale showcasing the robust nature of this

¹⁹F NMR as a tool in chemical biology

• Diana Gimenez,
• Aoife Phelan,
• Cormac D. Murphy and
• Steven L. Cobb

Beilstein J. Org. Chem. 2021, 17, 293–318, doi:10.3762/bjoc.17.28

• , protein folding, and potentially small-molecule library screening, as it can broaden the accessibility of quantitative NMR spectroscopy to a wider range of laboratories. Ligand-observed protein binding interactions In addition to protein-observed fluorine (PrOF) NMR spectroscopy, ligand-observed fluorine

• ] which is a binding assay, and fluorine atoms for biochemical screening (n-FABS) methodology which is a functional assay [39][40]. Both of these methods have been successfully used for ligand-based screening, fragment-based functional screening and dynamic library screening, and have been recently

A sustainable strategy for the straightforward preparation of 2H-azirines and highly functionalized NH-aziridines from vinyl azides using a single solvent flow-batch approach

• Michael Andresini,
• Leonardo Degannaro and
• Renzo Luisi

Beilstein J. Org. Chem. 2021, 17, 203–209, doi:10.3762/bjoc.17.20

• corresponding 2H-azirines in a microfluidic reactor, overcoming the hazards associated with this transformation under batch conditions. A small library of functionalized aryl and alkyl-substituted NH-aziridines has been created under operationally simple conditions. Notably, the addition reaction was found to

1,2,3-Triazoles as leaving groups in S_NAr–Arbuzov reactions: synthesis of C6-phosphonated purine derivatives

• Kārlis-Ēriks Kriķis,
• Irina Novosjolova,
• Anatoly Mishnev and
• Māris Turks

Beilstein J. Org. Chem. 2021, 17, 193–202, doi:10.3762/bjoc.17.19

• hours in neat P(OEt)3 at 160 °C. With the experimental conditions in hand, the SNAr–Arbuzov reaction between 2,6-bistriazolylpurines 6a–i and P(OEt)3 provided a library of novel purine phosphonates 4a–i in 27–82% yield (Table 3). The products 4a, 4d, 4e, and 4i were easily precipitated from hexane left

Novel library synthesis of 3,4-disubstituted pyridin-2(1H)-ones via cleavage of pyridine-2-oxy-7-azabenzotriazole ethers under ionic hydrogenation conditions at room temperature

• Romain Pierre,
• Anne Brethon,
• Sylvain A. Jacques,
• Aurélie Blond,
• Sandrine Chambon,
• Sandrine Talano,
• Catherine Raffin,
• Branislav Musicki,
• Claire Bouix-Peter,
• Loic Tomas,
• Gilles Ouvry,
• Rémy Morgentin,
• Laurent F. Hennequin and
• Craig S. Harris

Beilstein J. Org. Chem. 2021, 17, 156–165, doi:10.3762/bjoc.17.16

• investment in route scouting and optimization. This full paper focuses on the synthesis issues that we encountered during our route exploration and the original solutions we found that helped us to identify two optimized library-style processes to prepare our large kinase inhibitor library. Keywords: 7

• -azabenzotriazole; hinge-binder; ionic hydrogenation; library; pyridine-2(1H)-one; Introduction During a recent medicinal chemistry program targeting a kinase to treat skin disorders, we identified the 4-amino-3-carboxamide disubstituted pyridine-2(1H)-one motif (1) as an interesting starting point. Recently, both

• library building block acid chloride 2. The libraries were prepared in a 3-step manner: 1) amide coupling; 2) deprotection of the 2-methoxypyridine through hydrolysis at elevated temperatures; and 3) the final SNAr or Ullman step to introduce the amine vector with variable yields and chromatographic

Regioselective synthesis of heterocyclic N-sulfonyl amidines from heteroaromatic thioamides and sulfonyl azides

• Vladimir Ilkin,
• Vera Berseneva,
• Tetyana Beryozkina,
• Tatiana Glukhareva,
• Lidia Dianova,
• Wim Dehaen,
• Eugenia Seliverstova and
• Vasiliy Bakulev

Beilstein J. Org. Chem. 2020, 16, 2937–2947, doi:10.3762/bjoc.16.243

• (Table 1, entry 11 and Table 2, entry 14). Thus solvent-free conditions, a temperature of 88 °C and a thioamide/azide ratio of 1:2.5 are optimal to prepare N-sulfonyl amidine 1c (entry 11, Table 1). Next, these optimized conditions were used for the synthesis of a small library of 1-alkyl-1,2,3-triazoles

• amidines 3t–aa in good yields (Scheme 3). Thus, a library of N-sulfonyl amidines bearing differently substituted 1,2,3-triazoles was successfully prepared. Among them are compounds bearing an NH-unsubstituted 1,2,3-triazole ring which gives extra possibilities for the modification of the molecules by the

Using multiple self-sorting for switching functions in discrete multicomponent systems

• Amit Ghosh and
• Michael Schmittel

Beilstein J. Org. Chem. 2020, 16, 2831–2853, doi:10.3762/bjoc.16.233

• -sorting, and integrative vs non-integrative self-sorting. A completive self-sorting makes full use of all constituents in a given library, whereas an incomplete self-sorting describes mixtures containing one or several aggregates along with unused components. The integrative self-sorting [30] on the other

• -interlocked catenanes. When both cages were mixed without C70, the dynamic combinatorial library (DCL) of seven compositionally distinct mixed-ligand Zn4L6 cages was observed (Figure 5b). An efficient self-sorting was only observed after the addition of the guest C70. As expected, the cage [Zn4(8')6]8

• . e) A solvent change from CDCl3 to [d8]-toluene leads to a 2-fold completive self-sorting upon treatment with C60. (a) Two new Zn4L6-type cages. (b) The encapsulation of C70 induced distinct reconstitutions within a dynamic library of mixed ligand Zn4L6 cages. The formation of octahedral cages (a

On the mass spectrometric fragmentations of the bacterial sesterterpenes sestermobaraenes A–C

• Anwei Hou and
• Jeroen S. Dickschat

Beilstein J. Org. Chem. 2020, 16, 2807–2819, doi:10.3762/bjoc.16.231

• identification of terpenes requires either the direct comparison to an authentic standard, or, since such a standard is not always available, a very good match of the measured mass spectrum to a library spectrum and of the measured retention index to literature data. Mass spectrometric fragmentations proceed

Ring-closing metathesis of prochiral oxaenediynes to racemic 4-alkenyl-2-alkynyl-3,6-dihydro-2H-pyrans

• Viola Kolaříková,
• Markéta Rybáčková,
• Martin Svoboda and
• Jaroslav Kvíčala

Beilstein J. Org. Chem. 2020, 16, 2757–2768, doi:10.3762/bjoc.16.226

• substrate failed (Scheme 7). Next, the alkylated diynols 7b, 7c, and 8b–d were deprotected using standard methodologies affording the products in moderate to good yields (Scheme 8). With the diynols 4a–d in hand, we were able to synthesize a small library of allylated oxaenediynes 2 by the alkylation of the

Leveraging glycomics data in glycoprotein 3D structure validation with Privateer

• Haroldas Bagdonas,
• Daniel Ungar and
• Jon Agirre

Beilstein J. Org. Chem. 2020, 16, 2523–2533, doi:10.3762/bjoc.16.204

• intermediate interconversion library. A foundation for such interconversion libraries exists in the form of the carbohydrate validation software Privateer. The program is able to compute individual monosaccharide conformations from a glycoprotein model, check whether the modelled carbohydrates atomistic

NMR Spectroscopy of supramolecular chemistry on protein surfaces

• Peter Bayer,
• Anja Matena and
• Christine Beuck

Beilstein J. Org. Chem. 2020, 16, 2505–2522, doi:10.3762/bjoc.16.203

• protein–protein interactions, Valenti et al. used 1H,15N-TROSY-HSQC spectra of 15N,2H-labeled 14-3-3ΔC in combination with ligand-based WaterLOGSY experiments for the screening of a compound fragment library [107]. Screening by HSQC NMR spectra is more robust compared to ligand-detected NMR methods or

Computational tools for drawing, building and displaying carbohydrates: a visual guide

• Kanhaya Lal,
• Rafael Bermeo and
• Serge Perez

Beilstein J. Org. Chem. 2020, 16, 2448–2468, doi:10.3762/bjoc.16.199

• monosaccharides, substituents and linkages from the list of symbols. However, some wrong combinations of choices can block the interface, resulting in the need to re-start the process (SugarSketcher is on version beta 1.3). Alternatively, SugarSketcher also uses GlycoCT or a native template library as an input. A

• ][20] to define the input of these tools. Technically, the tool provides an interactive interface which allows an automated glycan rendering using a library of individual monosaccharides or pre-built template structures (Figure 6, middle). GlycanBuilder provides access to 41 templates. They include N

• ] (available at https://jcggdb.jp/idb/flash/GlycoEditor.jsp) is an online software for drawing glycans. Through a straightforward interface, three ways of input are possible: by JCGGDB ID, through a library of common oligosaccharides and by direct input. A list of most common monosaccharides is presented, and

GlypNirO: An automated workflow for quantitative N- and O-linked glycoproteomic data analysis

• Toan K. Phung,
• Cassandra L. Pegg and
• Benjamin L. Schulz

Beilstein J. Org. Chem. 2020, 16, 2127–2135, doi:10.3762/bjoc.16.180

• robustness and throughput. Our workflow uses a collection of scripts built on an in-house sequence string handling library and the scientific Python data handling package pandas [24], and integrates outputs of two commonly used software packages in glycoproteomic MS data analysis, Proteome Discoverer (Thermo

• included, parsed from the online UniProtKB database using an inhouse Python library. Statistical analyses Significant differences in glycoform abundances between healthy and diseased samples were evaluated using an unpaired two-tailed t-test without corrections for multiple comparisons. Missing values were

Access to highly substituted oxazoles by the reaction of α-azidochalcone with potassium thiocyanate

• Mysore Bhyrappa Harisha,
• Pandi Dhanalakshmi,
• Rajendran Suresh,
• Raju Ranjith Kumar and
• Shanmugam Muthusubramanian

Beilstein J. Org. Chem. 2020, 16, 2108–2118, doi:10.3762/bjoc.16.178

• just at the start of the reaction and b is the photograph after the completion of the reaction. Further, the utility of the thiol group in 3 for the generation of a library of compounds was demonstrated by the simple acetylation and alkylation (Scheme 4 and Scheme 5). The acetylation of the thiol group

Automated high-content imaging for cellular uptake, from the Schmuck cation to the latest cyclic oligochalcogenides

• Rémi Martinent,
• Javier López-Andarias,
• Dimitri Moreau,
• Yangyang Cheng,
• Naomi Sakai and
• Stefan Matile

Beilstein J. Org. Chem. 2020, 16, 2007–2016, doi:10.3762/bjoc.16.167

• library of 259 molecular tweezers through an ethidium bromide (EB) displacement assay, show a negligible DNA transfection efficiency (Figure 3). However, the derivative 15, with two lipophilic hydrocarbon chains, results in a remarkable DNA delivery and transfection [35]. These two hydrocarbon chains

Synthesis, docking study and biological evaluation of ᴅ-fructofuranosyl and ᴅ-tagatofuranosyl sulfones as potential inhibitors of the mycobacterial galactan synthesis targeting the galactofuranosyltransferase GlfT2

• Marek Baráth,
• Jana Jakubčinová,
• Zuzana Konyariková,
• Stanislav Kozmon,
• Katarína Mikušová and
• Maroš Bella

Beilstein J. Org. Chem. 2020, 16, 1853–1862, doi:10.3762/bjoc.16.152

• species are GL4, the product of GlfT1 and GL5, the product of GlfT2. In the presence of 10 mM 1bα the predominant bands are GL3 and GL4, the products of GlfT1, which could point to a GlfT2 inhibition. Conclusion In summary, a small library of ᴅ-fructofuranosyl and ᴅ-tagatofuranosyl sulfones 1‒3 was

• structures do not include the uridine mimicking part which can increase the binding affinity significantly. Attaching of this part is a topic of further synthesis and second-generation compound library preparation. We believe that our further efforts, both in synthetic and computational fields, will point to