Synthesis of electrophile-tethered preQ₁ analogs for covalent attachment to preQ₁ RNA

• Laurin Flemmich and
• Ronald Micura

Beilstein J. Org. Chem. 2025, 21, 483–489, doi:10.3762/bjoc.21.35

• 3b in almost quantitative yield. The bis(3-bromopropyl)-modified ligand 3c was generated by heating preQ1 together with bis(3-hydroxypropyl)amine. It is noteworthy that the amine exchange reaction is thought to proceed via a purine methide intermediate [11]. Subsequent treatment of the diol with

• nucleoside queuosine (Q) occurring as natural tRNA modifications. Purine ring numbering is indicated in grey. The synthetic targets of this study are highlighted in grey: Natural riboswitch ligand pre-queuosine 1 (preQ1), a novel preQ1 analog with altered base-pairing properties (2,6-diamino-pre-queuosine 2

Synthesis and antimycotic activity of new derivatives of imidazo[1,2-a]pyrimidines

• Dmitriy Yu. Vandyshev,
• Daria A. Mangusheva,
• Khidmet S. Shikhaliev,
• Kirill A. Scherbakov,
• Oleg N. Burov,
• Alexander D. Zagrebaev,
• Tatiana N. Khmelevskaya,
• Alexey S. Trenin and
• Fedor I. Zubkov

Beilstein J. Org. Chem. 2024, 20, 2806–2817, doi:10.3762/bjoc.20.236

• (small-molecule concept) offer a distinctive advantage in the synthesis of new biologically active molecules, as they are synthetic bioisosters of purine bases. Imidazo[1,2-a]pyrimidine derivatives exhibit a wide range of pharmacological properties [4][5][6]. For example, this scaffold is a key

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

• the glycosidic bond using an organometallic purine or pyrimidine derivative and an electrophilic furanose derivative [23][25]. This process can result in anomeric mixtures, so 5 has potential applications in targeted synthesis, as the configuration of the pseudo-anomeric centre matches the common

Cyanothioacetamides as a synthetic platform for the synthesis of aminopyrazole derivatives

• Valeriy O. Filimonov,
• Alexandra I. Topchiy,
• Vladimir G. Ilkin,
• Tetyana V. Beryozkina and
• Vasiliy A. Bakulev

Beilstein J. Org. Chem. 2023, 19, 1191–1197, doi:10.3762/bjoc.19.87

• mercaptopurine (Figure 1), containing an intracyclic thioamide group, are antagonists of purine bases and are well known as cytostatic drugs [13]. The thioamide group as an amide isostere is used in medical chemistry to increase thermal and proteolytic stability and improve the pharmacokinetic properties of

A new route for the synthesis of 1-deazaguanine and 1-deazahypoxanthine

• Raphael Bereiter,
• Marco Oberlechner and
• Ronald Micura

Beilstein J. Org. Chem. 2022, 18, 1617–1624, doi:10.3762/bjoc.18.172

• chemistry. They can also be considered as deaza-modified purine nucleobases, and as such have attracted a lot of interest recently in the context of RNA atomic mutagenesis. In particular, for 1-deazaguanine (c1G base), a significant increase in demand is apparent. Synthetic access is challenging and the few

• synthesis of 1-deazaguanine and 1-deazahypoxanthine. Previously published routes toward these compounds focused on ring closure of the imidazole part of the purine system after the pyrimidine core had been functionalized, however, the drawback of this approach is the passage of rather hazardous/explosive

Functionalization of imidazole N-oxide: a recent discovery in organic transformations

• Koustav Singha,
• Imran Habib and
• Mossaraf Hossain

Beilstein J. Org. Chem. 2022, 18, 1575–1588, doi:10.3762/bjoc.18.168

• histidine and the related local-immune hormone histamine. In the structural view of DNA and RNA, purine bases contain imidazole moieties. Also, imidazole N-oxides have various and intriguing applications in natural products synthesis, catalysis, and coordination chemistry [3]. Derivatives of imidazole

Ferrocenoyl-adenines: substituent effects on regioselective acylation

• Mateja Toma,
• Gabrijel Zubčić,
• Jasmina Lapić,
• Senka Djaković,
• Davor Šakić and
• Valerije Vrček

Beilstein J. Org. Chem. 2022, 18, 1270–1277, doi:10.3762/bjoc.18.133

• the acylation of purines from a regioselective to a regiospecific mode. Keywords: DFT; ferrocene; nucleophilicity; purine; steric effect; Introduction Nucleosides in which the sugar part is replaced with an organometallic moiety have attracted remarkable interest [1][2][3]. One important class are

• ], or structural motifs in xeno nucleic acids [18]. In continuation of our work on ferrocenoyl-substituted pyrimidine nucleobases [19], we report herewith a combined theoretical and experimental work on purine series. The novelty of these compounds is the carbonyl linker which connects the

• organometallic (metallocene) and heterocyclic (purine) parts. Specifically, adenine and its N6-derivatives, most of which are pharmaceutically attractive and/or biologically relevant [20][21][22], have been selected to study the mechanism underlying the synthesis of the ferrocene–nucleobase conjugates. Several

Synthesis of novel [1,2,4]triazolo[1,5-b][1,2,4,5]tetrazines and investigation of their fungistatic activity

• Anna V. Korotina,
• Svetlana G. Tolshchina,
• Rashida I. Ishmetova,
• Natalya P. Evstigneeva,
• Natalya A. Gerasimova,
• Natalya V. Zilberberg,
• Nikolay V. Kungurov,
• Gennady L. Rusinov,
• Oleg N. Chupakhin and
• Valery N. Charushin

Beilstein J. Org. Chem. 2022, 18, 243–250, doi:10.3762/bjoc.18.29

• . Keywords: antifungal activity; nucleophilic substitution; oxidative cyclization; [1,2,4]triazolo[1,5-b][1,2,4,5]tetrazines; Introduction Azolo-annulated azines can be regarded as purine isosteres and are of great interest for modern medicinal chemistry as potential biologically active compounds. In

• . It is worth noting that triazolo[1,5-b][1,2,4,5]tetrazines are of particular interest for further research of their biological activity since the locations of nitrogen atoms in these molecules are closer to purine derivatives than those in isomeric known triazolo[4,3-b][1,2,4,5]tetrazines (Scheme 1

• ]triazolo[1,5-b][1,2,4,5]tetrazine (b), 7H-purine (c). Synthesis of [1,2,4]triazolo[1,5-b][1,2,4,5]tetrazines 3a–k. Reactions of triazolo[1,5-b][1,2,4,5]tetrazines 3a,j with N- and O-nucleophiles. Reactions of triazolo[1,5-b][1,2,4,5]tetrazines 3a,j with C-nucleophiles. Reactions of 6-(3,5-dimethyl-1H

Synthetic strategies toward 1,3-oxathiolane nucleoside analogues

• Umesh P. Aher,
• Dhananjai Srivastava,
• Girij P. Singh and
• Jayashree B. S

Beilstein J. Org. Chem. 2021, 17, 2680–2715, doi:10.3762/bjoc.17.182

• of TMSOTf for the N-glycosylation procedure afforded a racemic mixture. This could be due to the opening as well as closing of the oxathiolane ring under the reaction conditions. Optically pure β-ᴅ- and α-ᴅ-configured 1,3-oxathiolane pyrimidine and 1,3-oxathiolane purine nucleosides with natural

• purine nucleobases via N-glycosylation. The anti-HIV activity of the nucleosides 83 was quantified by EC50 values of 94.7 µM and 11.6 µM when X = H or CH3 and Y = OH, respectively [33]. The α-anomers were also isolated by chromatographic separation methods. To study the structure–activity relationships

Recent advances in organocatalytic asymmetric aza-Michael reactions of amines and amides

• Pratibha Sharma,
• Raakhi Gupta and
• Raj K. Bansal

Beilstein J. Org. Chem. 2021, 17, 2585–2610, doi:10.3762/bjoc.17.173

• enantioselectivities of up to 93% (Table 24) [65]. The role of the additive is to assist in the formation of the iminium intermediate from the reaction of pyrrolidine with the aldehyde group. Following a similar approach, Guo et al. accomplished the first organocatalytic asymmetric aza-Michael addition of purine bases

• chiral N-triflylphosphoramide. Aza-Michael addition of primary amines to β-trifluromethyl-β-phenylnitroolefin catalyzed nitrogen heterocyclic carbene. Asymmetric aza-Michael additions of pyrroles to protected (E)-4-hydroxybut-2-enals. Asymmetric aza-Michael addition of purine bases to aliphatic α,β

Regioselective N-alkylation of the 1H-indazole scaffold; ring substituent and N-alkylating reagent effects on regioisomeric distribution

• Ryan M. Alam and
• John J. Keating

Beilstein J. Org. Chem. 2021, 17, 1939–1951, doi:10.3762/bjoc.17.127

• , respectively (Table 2, entry 3). Apart from the 1H-indazole scaffold [36][37], the steric influence of adjacent substituent(s) on N-alkylation regioselectivity has previously been described for other nitrogen-containing heterocycles, such as pyrazole [38], purine, and related 1,3-azoles [39]. Although the N

On the application of 3d metals for C–H activation toward bioactive compounds: The key step for the synthesis of silver bullets

• Renato L. Carvalho,
• Amanda S. de Miranda,
• Mateus P. Nunes,
• Roberto S. Gomes,
• Guilherme A. M. Jardim and
• Eufrânio N. da Silva Júnior

Beilstein J. Org. Chem. 2021, 17, 1849–1938, doi:10.3762/bjoc.17.126

Cationic oligonucleotide derivatives and conjugates: A favorable approach for enhanced DNA and RNA targeting oligonucleotides

• Mathias B. Danielsen and
• Jesper Wengel

Beilstein J. Org. Chem. 2021, 17, 1828–1848, doi:10.3762/bjoc.17.125

• be taken when conjugating amine moieties onto guanine. Interestingly, in a post-oligo synthetic modification approach, a 2-fluoro-6-p-nitrophenylethyl-2’-deoxyinosine-3'-phosphoramidite monomer was incorporated twice into an 11-mer ON, whereupon spermine was attached to the 2-position of the purine

Chemical approaches to discover the full potential of peptide nucleic acids in biomedical applications

• Nikita Brodyagin,
• Martins Katkevics,
• Venubabu Kotikam,
• Christopher A. Ryan and
• Eriks Rozners

Beilstein J. Org. Chem. 2021, 17, 1641–1688, doi:10.3762/bjoc.17.116

• vulnerabilities. Limited water solubility, especially for purine rich sequences, was noted in early studies. To improve water solubility and decrease aggregation, typical PNA designs place a lysine at the C-terminus (Figure 1) introducing a second positive charge in addition to the charge at the N-terminus of PNA

• such binding modes involving purine-rich PNAs, as discussed in a recent review [32]. However, it is also possible that this is an underexplored PNA binding mode. G-rich PNAs do not form stable G-quadruplexes [33], which suggests that with innovative chemistry, it may be possible to explore G-rich PNAs

• for antiparallel triplexes. The strand invasion complex contains two PNA molecules binding the purine-rich strand of DNA. While one PNA strand forms an antiparallel Watson–Crick duplex, the other strand forms a parallel Hoogsteen triplex, which brings the N- and C-ends of the two strands in proximity

Double-headed nucleosides: Synthesis and applications

• Vineet Verma,
• Jyotirmoy Maity,
• Vipin K. Maikhuri,
• Ritika Sharma,
• Himal K. Ganguly and
• Ashok K. Prasad

Beilstein J. Org. Chem. 2021, 17, 1392–1439, doi:10.3762/bjoc.17.98

• of deoxyribonucleic acids (DNA) or ribonucleic acids (RNA), which contain either a purine or pyrimidine nucleobase and a furanosyl moiety of pentose sugars, 2′-deoxyribose or ribose [1][2]. Nucleotides are constituted by addition of a phosphate group at the 5′-position of the nucleosides and these

• nucleosides 2,6-dichloro-9-(2,3,5-tri-O-acetyl-5-C-(3-mesitylisoxazol-5-yl)-α-ʟ-idopentofuranosyl)-9H-purine (91) and 2,6-dichloro-9-(2,3,5-tri-O-acetyl-5-C-(1-phenyl-1,2,3-triazol-4-yl)-β-ᴅ-glucopentofuranosyl)-9H-purine (92) starting from 3,5-di-O-acetyl-6,7-dideoxy-1,2-O-isopropylidene-ʟ-ido/α-ᴅ-gluco-hept

Synthetic accesses to biguanide compounds

• Oleksandr Grytsai,
• Cyril Ronco and
• Rachid Benhida

Beilstein J. Org. Chem. 2021, 17, 1001–1040, doi:10.3762/bjoc.17.82

Beyond ribose and phosphate: Selected nucleic acid modifications for structure–function investigations and therapeutic applications

• Christopher Liczner,
• Kieran Duke,
• Gabrielle Juneau,
• Martin Egli and
• Christopher J. Wilds

Beilstein J. Org. Chem. 2021, 17, 908–931, doi:10.3762/bjoc.17.76

• , the Seita group showed that thymine and guanine analogues could be prepared in a similar fashion [97]. Interestingly, both groups found that condensation of purine bases to yield GNA derivatives gave two dihydroxypropylated isomers: the N3 (I) and the N9 (II) dihydroxypropylated isomers. Using

• finally, treatment with aqueous ammonia. In contrast, the purine synthetic route first uses the bis-silylating agent [methylene bis(diisopropylsilyl)chloride] (MDPS) to protect both the 5' and 3'-hydroxy groups [118]. The protected nucleoside can then be treated with 2-methoxyethyl bromide in the presence

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

• ] reported the potential of naphthopyrans as non-purine xanthine oxidase inhibitors. They explored a silicated fluoroboric acid-catalyzed three-component cycloaddition involving acyclic 1,3-diketones 54, β-naphthol (55) and aldehyde 5 for the synthesis of substituted naphthopyrans 56 under microwave

• furnished the desired products 105 in good to moderate yields. 7 Purines Purines are categorized as heterocyclic aromatic compounds, consisting of a pyrimidine ring fused to an imidazole ring. Adenine and guanine are purine nitrogenous bases found in nucleic acids. Utilizing purine analogs as isosteres are

• well-thought-out as an important approach in medicinal chemistry and in drug discovery domains [91][92]. Purine scaffolds, such as allopurinol (106) used as the first choice of drug in gout therapy and temozolomide (107) used in the treatment of brain cancer are well-known examples [93][94]. Among the

Synthesis and properties of oligonucleotides modified with an N-methylguanidine-bridged nucleic acid (GuNA[Me]) bearing adenine, guanine, or 5-methylcytosine nucleobases

• Naohiro Horie,
• Takao Yamaguchi,
• Shinji Kumagai and
• Satoshi Obika

Beilstein J. Org. Chem. 2021, 17, 622–629, doi:10.3762/bjoc.17.54

• ) at 60 °C for 5 h. Under these conditions, we obtained the GuNA[Me]-mC-modified oligonucleotide ON3 with high purity. In the case of the GuNA[Me] having a purine nucleobase (ON1 and ON2), the acetyl group in the guanidine moiety remained in a considerable amount. This means that we should give

1,2,3-Triazoles as leaving groups: S_NAr reactions of 2,6-bistriazolylpurines with O- and C-nucleophiles

• Dace Cīrule,
• Irina Novosjolova,
• Ērika Bizdēna and
• Māris Turks

Beilstein J. Org. Chem. 2021, 17, 410–419, doi:10.3762/bjoc.17.37

• ring at the C6 position of purine to act as leaving group. Keywords: 2,6-bistriazolyl purines; nucleophilic aromatic substitution; purine nucleosides; triazoles; Introduction Modified purine derivatives are an important class of compounds which possess a wide spectrum of biological activities [1][2

• ][3][4][5][6]. They are often used as antiviral, anticancer and antibacterial agents. Such intensive medicinal chemistry applications demand for constant development of novel synthetic methodologies. Frequently, the purine structure is modified in SNAr reactions with N- [7][8][9][10][11] and S

• excess (5–40 equiv) and often play a role of both solvent and reagent. Reactions usually are performed in polar aprotic solvents such as DMF, MeCN or THF using alkoxides NaH, K2CO3 or Na2CO3 as a base, respectively. Other methods for the introduction of alkyloxy or aryloxy substituents in the purine

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

• development of this topic [8][9][10][11]. On the contrary, only a few examples can be found in the literature where a phosphorus-containing substituent is directly attached to the purine ring [12][13]. In 2008, an SNAr–Arbuzov reaction was developed for 6-chloropurine derivatives under microwave irradiation

• activity against Mycobacterium tuberculosis and also as agonists and antagonists of adenosine receptors [18]. In 2013, we developed an efficient approach for the synthesis of ribo- and arabino-2,6-bistriazolylpurine nucleosides and showed that the triazolyl ring in the C6 position of purine acts as a good

• -bistriazolylpurines. This led to a discovery of novel C–P bond formations from C–N bonds in SNAr–Arbuzov reactions (I→J, Scheme 1). The obtained series of compounds combines three structural motifs that are important in terms of medicinal chemistry in one molecule: purine, triazole, and phosphonate. Results and

Changed reactivity of secondary hydroxy groups in C8-modified adenosine – lessons learned from silylation

• Jennifer Frommer and
• Sabine Müller

Beilstein J. Org. Chem. 2020, 16, 2854–2861, doi:10.3762/bjoc.16.234

• conjugation of the desired moiety. A C8-alkynyl-modified adenosine derivative was synthesized, reviving an old synthetic pathway for iodination of purine nucleobases. Silylation of the C8-alkynyl-modified adenosine revealed unexpected selectivity of the two secondary sugar hydroxy groups, with the 3'-O-isomer

• building blocks of the purine nucleosides with functionalities suitable for post-synthetic conjugation at the nucleobase are basically missing, and also in the pyrimidine series, the few existing derivatives of uridine do not offer much variety. Motivated by this lack of functional building blocks, we have

• synthesized a number of pyrimidine and purine derivatives carrying amino linkers of different length and flexibility [13][20]. Linker-modified uridine derivatives, upon conversion into phosphoramidite building blocks, were incorporated in RNA and used for a systematic study of distance determination of

Synthesis of purines and adenines containing the hexafluoroisopropyl group

• Viacheslav Petrov,
• Rebecca J. Dooley,
• Alexander A. Marchione,
• Elizabeth L. Diaz,
• Brittany S. Clem and
• William Marshall

Beilstein J. Org. Chem. 2020, 16, 2739–2748, doi:10.3762/bjoc.16.224

• 19713, USA DuPont Corporate Center for Analytical Sciences, Experimental Station, P.O. Box 80500, Wilmington, DE 19880-0500, USA 10.3762/bjoc.16.224 Abstract Several new derivatives of adenine, purine, and theophylline containing the (CF3)2CH group connected to a nitrogen atom of the imidazole ring

• products in 47–78% yield. While for purine and 4- and 5-azabenzimidazole, the reaction led to a mixture of two isomers, the reaction of adenine and the corresponding 2-fluoro derivative was regioselective, resulting in the formation of only one isomer in each case. The alkylation of theophylline led to the

• formation of a new derivative of caffeine. Keywords: adenine; caffeine; cyclic dimer of hexafluorothioacetone; hexafluoroisopropyl group; purine; 2,2,4,4-tetrakis(trifluoromethyl)-1,3-dithietane; theophylline; Introduction Despite significant progress in the last 20–30 years, the selective introduction of

Anion exchange resins in phosphate form as versatile carriers for the reactions catalyzed by nucleoside phosphorylases

• Julia N. Artsemyeva,
• Ekaterina A. Remeeva,
• Tatiana N. Buravskaya,
• Irina D. Konstantinova,
• Roman S. Esipov,
• Anatoly I. Miroshnikov,
• Natalia M. Litvinko and
• Igor A. Mikhailopulo

Beilstein J. Org. Chem. 2020, 16, 2607–2622, doi:10.3762/bjoc.16.212

• ; purine nucleoside phosphorylases; recombinant E. coli uridine; thymidine; Introduction Diverse variants of enzymatic syntheses of nucleosides using nucleoside phosphorylases as biocatalysts have been repeatedly described in original studies and discussed in a number of recent reviews (see, e.g., [1][2

• more complicated in comparison with the enzymatic reaction of a heterocyclic base with an individual PF-1Pi [17][18][27]. However, it is known that most of purine heterocycles are poorly soluble in aqueous phosphate buffers, and the use of a cross-glycosylation scheme, i.e., a purine nucleoside as a

• donor of the purine base and another nucleoside as a source of a PF-1Pi, could solve this problem in some cases, despite a more complex optimization process. On the whole, the choice of the methodology for the production of biologically important nucleosides depends on a number of factors and the

Chan–Evans–Lam N1-(het)arylation and N1-alkеnylation of 4-fluoroalkylpyrimidin-2(1H)-ones

• Viktor M. Tkachuk,
• Oleh O. Lukianov,
• Mykhailo V. Vovk,
• Isabelle Gillaizeau and
• Volodymyr A. Sukach

Beilstein J. Org. Chem. 2020, 16, 2304–2313, doi:10.3762/bjoc.16.191

• conditions. There are a few thorough studies on this reaction with pyrimidine and purine nucleoside bases and their derivatives which are most closely related to fluorine-containing substrates 1 [40][41][42]. However, considering the high sensitivity and capricious nature of CEL reaction, we wish to report