α-Ketol and α-iminol rearrangements in synthetic organic and biosynthetic reactions

• Scott Benz and
• Andrew S. Murkin

Beilstein J. Org. Chem. 2021, 17, 2570–2584, doi:10.3762/bjoc.17.172

• part of their mechanism. Ketol-acid reductoisomerase (KAR), which is involved in the biosynthesis of branched-chain amino acids, takes as its substrate either (2S)-acetolactate (60, R = Me), which is ultimately converted into valine or leucine, or (2S)-acetohydroxybutyrate (60, R = Et), which

Visible-light-mediated copper photocatalysis for organic syntheses

• Yajing Zhang,
• Qian Wang,
• Zongsheng Yan,
• Donglai Ma and
• Yuguang Zheng

Beilstein J. Org. Chem. 2021, 17, 2520–2542, doi:10.3762/bjoc.17.169

• quinolones 56, indolo[3,2-c]quinolines 57, β-amino acids 58, and 1,4-dihydropyridine derivatives 59 were obtained through this route in moderate yields (Scheme 26). Besides nucleophiles, aromatic amines also reacted with redox-active radical precursors, such as NHPI [95] and N-alkoxyphthalimides 55 [96]. The

Synthesis of new substituted 7,12-dihydro-6,12-methanodibenzo[c,f]azocine-5-carboxylic acids containing a tetracyclic tetrahydroisoquinoline core structure

• Agnieszka Grajewska,
• Maria Chrzanowska and
• Wiktoria Adamska

Beilstein J. Org. Chem. 2021, 17, 2511–2519, doi:10.3762/bjoc.17.168

• , several acids have been prepared in satisfactory yields. An unprecedented chemical behavior of a Petasis reaction product in diluted HCl solution leading to the formation of a phenylglycine derivative has been observed and the mechanism explaining such reactivity has been proposed. Keywords: amino acids

• Petasis three-component reaction followed by the Pomeranz–Fritsch–Bobbitt cyclization. The Petasis reaction between boronic acids, carbonyl derivatives, and amines, leading to the formation of amino acids and the Pomeranz–Fritsch–Bobbitt cyclization of amino acetals, leading to the construction of C-1

• 5a–d carried out in DCM at rt for 24 h to afford amino acids 6a–g (Scheme 4). The condensation of N-(2,3-dimethoxybenzyl)aminoacetaldehyde acetal (3a) with glyoxylic acid hydrate (4) and 3,4-dimethoxyphenylboronic acid (5a) afforded the Petasis reaction product 6a in a high 94% yield. The double

Isolation and characterization of new phenolic siderophores with antimicrobial properties from Pseudomonas sp. UIAU-6B

• Emmanuel T. Oluwabusola,
• Olusoji O. Adebisi,
• Fernando Reyes,
• Kojo S. Acquah,
• Mercedes De La Cruz,
• Larry L. Mweetwa,
• Joy E. Rajakulendran,
• Digby F. Warner,
• Deng Hai,
• Rainer Ebel and
• Marcel Jaspars

Beilstein J. Org. Chem. 2021, 17, 2390–2398, doi:10.3762/bjoc.17.156

• addition of 1 M HCl (20 µL), diluted with acetonitrile (100 µL), and filtered through a PTFE membrane filter (0.45 µm). The standard amino acids (ᴅ-Thr, ʟ-Thr, and ʟ-allo-Thr) were subjected to derivatization with ʟ-FDAA by using the same method previously described. For the HPLC analysis, mixtures of the

A study on selective transformation of norbornadiene into fluorinated cyclopentane-fused isoxazolines

• Zsanett Benke,
• Attila M. Remete and
• Loránd Kiss

Beilstein J. Org. Chem. 2021, 17, 2051–2066, doi:10.3762/bjoc.17.132

• of natural products (especially macrocycles) [12], alkaloids [13], amino acids and functionalized biomolecules such as peptides [14][15][16][17][18][19][20] or various drugs [21]. Due to the ring strain, bicyclic systems and derivatives, such as norbornadiene derivatives can easily be converted

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

• the late-stage modification of amino acids and peptides in 2016 (Scheme 27A and B) [159]. The methodology facilitated the targeted C–H oxidative modifications in amino acids and peptides concomitant with the preservation of the α-center chirality in good yields and broad scope regarding the number of

• amino acids and peptide scaffolds compatible with the transformation. The late-stage oxidation of proline 76 to 5-hydroxyproline furnished interesting intermediates, giving access to relevant motifs in peptide chemistry (Scheme 27C). Sesquiterpenes are known to present complex polycyclic structures with

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

• discussed. Amino acids and cationic modifications that replace the core structure of the nucleobase, sugar, or the internucleotide linkage have been excluded. Cationic amine-functionalized group substitutions at nucleobases One strategy that has attracted a lot of interest is the attachment of cationic

• relative to the downregulation of the reference ASO (Oblimersen) [91]. In an entirely different approach, the 2’-amino group of amino-LNA-thymine (amino-LNA-T) has been explored as an attachment point for various cationic groups. As one example, amino acids such as glycine, lysine, and proline in different

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

• positions of the backbone α-Modified PNA: Adding substituents to the N-(2-aminoethyl)glycine backbone has been an obvious starting point for PNA modification. Nielsen and co-workers were the first to replace the glycine residues in PNA backbone with various chiral amino acids [67][68]. Most of these α

• -modified PNA monomers (Figure 5) slightly reduced PNA binding affinity, with ᴅ-amino acids being somewhat better accommodated in the backbone than ʟ-amino acids and ᴅ-Lys being the only α-backbone modification that slightly increased PNA’s binding affinity to complementary DNA (but not RNA) [67]. Circular

A recent overview on the synthesis of 1,4,5-trisubstituted 1,2,3-triazoles

• Pezhman Shiri,
• Ali Mohammad Amani and
• Thomas Mayer-Gall

Beilstein J. Org. Chem. 2021, 17, 1600–1628, doi:10.3762/bjoc.17.114

• employing a variety of amino esters and a wide range of (hetero)aromatic and alkyl ketones. Natural products, such as 5α-cholestan-3-one and dihydrotestosterone, were also tolerated, affording a new strategy to modify biologically active compounds. Amino acids, such as tyrosine, ʟ-Phe-ʟ-Phe, glutamic acid

N-tert-Butanesulfinyl imines in the asymmetric synthesis of nitrogen-containing heterocycles

• Joseane A. Mendes,
• Paulo R. R. Costa,
• Miguel Yus,
• Francisco Foubelo and
• Camilla D. Buarque

Beilstein J. Org. Chem. 2021, 17, 1096–1140, doi:10.3762/bjoc.17.86

• important tool in the asymmetric synthesis of aziridines [25][26], α-amino acids [27][28], β-amino acids [23][29] and branched α-amines [30][31]. The Darzens-type asymmetric synthesis of N-(p-toluenesulfinyl)aziridine 2-carboxylate esters (7 and 8) was described through the addition of lithium α

• hand, natural amino acids proline and hydroxyproline are functionalized pyrrolidines that have found great application in organic synthesis as chiral organocatalysts in stereoselective processes [93][94]. Cyclizations involving a position in the starting chiral imine Arylation of chiral sulfinyl imines

• ) [105]. Li and Xu reported a method for the enantioselective synthesis of β,γ-unsaturated α-amino acids 100, by a Lewis acid-promoted diastereoselective Petasis reaction of vinylboronic acids 98, (R)-N-tert-butanesulfinamide and glyoxylic acid (99). They found that the best results were obtained working

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

• Vaillancourt et al. in 2001 for the synthesis of different monosubstituted biguanides with potential antidiabetic properties (Scheme 34) [71]. In particular, the condensation of this reagent with different amino acids such as β-alanine, 3-aminopropionic acid, and taurine in the presence of trimethylamine in

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

• transferrin receptor is highly expressed in brain capillaries, nucleated cells, and in rapidly dividing cells [21], and its endogenous ligand transferrin has previously been used to increase transport of small molecules and oligonucleotides across the BBB [21][22][23]. The peptide T7 consisting of seven amino

• acids (H-HAIYPRH-NH2) was identified via phage display [24] and has a high affinity (≈10 nM) for the transferrin receptor [24][25]. This peptide does not compete with endogenous transferrin binding and has been used to successfully enhance drug delivery to brain tissue [15][22][24][25][26]. Both

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

• % along with drastic reduction in side product formation and reaction time from 24 h to 50 min when compared to the conventional method. The method proved to be efficient even with chiral amino acids resulting in separable diastereomeric mixtures. The synthesized molecules manifested potent anti

• 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

• acids 37. Likewise, the four-component reaction comprised of isatin 35, but-2-ynedioates 39, amino acids 37 and phenacyl bromides 41 to yield the N-acylated spirooxindoles 42 in good yields (Scheme 13). The reaction effectively explored the 1,3 dipolar compound generated with isatin and amino acids

Synthetic reactions driven by electron-donor–acceptor (EDA) complexes

• Zhonglie Yang,
• Yutong Liu,
• Kun Cao,
• Xiaobin Zhang,
• Hezhong Jiang and
• Jiahong Li

Beilstein J. Org. Chem. 2021, 17, 771–799, doi:10.3762/bjoc.17.67

• synthesis of unnatural α-amino acids 129 and precise alkylation modification of peptides in the later stage (Scheme 45). Even in the presence of other amino acid residues, this protocol has excellent regio- and chemoselectivity, providing a sequence of novel corresponding dipeptides with good yield. The

• construction of C–S bonds C–S bonds are commonly present in amino acids, proteins, glycosides, nucleic acids, and other biological macromolecules. In recent years, photocatalyst- and transition-metal strategies have been employed to construct C–S bonds [66][67][68][69]. The C–S bond synthesis via EDA-complex

Synthesis and physicochemical evaluation of fluorinated lipopeptide precursors of ligands for microbubble targeting

• Masayori Hagimori,
• Estefanía E. Mendoza-Ortega and
• Marie Pierre Krafft

Beilstein J. Org. Chem. 2021, 17, 511–518, doi:10.3762/bjoc.17.45

• was stepwisely elongated, and eventually conjugated with the (perfluoroalkyl)ethyl acids (Scheme 2). After the cleavage from the resin, the Fmoc groups of the amino acids were removed, and the F-lipopeptides were purified using a dialysis membrane. According to mass spectrometry, FTIR, and HPLC

• fluorine–fluorine interactions. Experimental Materials. We purchased Fmoc-protected amino acids, N,N-dimethylformamide (DMF), dichloromethane (DCM), methanol, 1-hydroxybenzotriazole (HOBT), 2-(1H-benzotriazole-1-yl)-1,1,3,3-tetramethyluronium hexafluorophosphate (HBTU), N,N-diisopropylethylamine (DIPEA

• for capping the unreacted amino acids and the mixture was shaken for 5 min. In a similar manner, each of the peptide chains was elongated by coupling Fmoc-Ser(t-Bu)-OH (3 equiv), Fmoc-Gly-OH (3 equiv) and Fmoc-Lys(Boc)-OH (3 equiv) to the Rink Amide AM resin. After introducing Fmoc-Lys(Fmoc)-OH as the

Synthetic strategies of phosphonodepsipeptides

• Jiaxi Xu

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

• dichlorophosphites followed by alcoholysis with hydroxy esters, the phosphinylation of hydroxy esters with phosphonochloridites followed by oxidation, and the carbene insertion of N-protected amino acids with 1-diazoalkylphosphonates. This review includes the synthesis of α-, β-, and γ-phosphonodepsipeptides and

• transpeptidase, which catalyzes the transfer of the γ-glutamyl group of glutathione and related γ-glutamyl amides to amino acids and peptides (transpeptidation) or to water (hydrolysis). For this purpose, N-Cbz-aminophosphonic acid 91 was first transformed to the corresponding dichloride 92, which underwent a

• prepared from optically pure amino acids and converted to the benzyl or methyl [2-hydroxyalkanoyl]glycinates 97. Following the similar strategy, phosphonodepsitripeptides 99 and 102 were synthesized. The phosphonodepsidipeptide 104 was prepared through the sequential coupling of N-Cbz-γ

Biochemistry of fluoroprolines: the prospect of making fluorine a bioelement

• Vladimir Kubyshkin,
• Rebecca Davis and
• Nediljko Budisa

Beilstein J. Org. Chem. 2021, 17, 439–460, doi:10.3762/bjoc.17.40

• structure and distinct conformational profile, proline is unique in the repertoire of the 20 amino acids coded into proteins. Here, we summarize the biochemical work on the replacement of proline with (4R)- and (4S)-fluoroproline as well as 4,4-difluoroproline in proteins done mainly in the last two decades

• . We first recapitulate the complex position and biochemical fate of proline in the biochemistry of a cell, discuss the physicochemical properties of fluoroprolines, and overview the attempts to use these amino acids as proline replacements in studies of protein production and folding. Fluorinated

• biodiversity, containing fluorine as a bioelement. Keywords: amino acids; evolution; fluorine; proline; proteins; Introduction Nature employs a rather small set of chemical elements for constructing the core biochemical makeup. Most elements of the periodic table are excluded from the biochemical world. Not

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

• innovative approach (85% yield, for details see [21]). To further exploit the value of this continuous flow approach the possibility of converting selected carbamate products into derivatives of β-amino acids (e.g., 8) was evaluated. Although this may be achieved by a conventional alkylation of the carbamate

• immobilized CALB enzyme is reported. This approach enabled the chemoselective derivatization of benzyl alcohol into the readily removable benzyl butyrate thus simplifying the final purification stages. The resulting Cbz-carbamates were furthermore elaborated into derivatives of β-amino acids via biphasic flow

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

• introduction of unnatural amino acids into proteins have been reviewed extensively elsewhere [5][6][7] and here we will only discuss the most recent advances. The chemical structures of a selection of 19F-labelled amino acid analogues that have been utilized in 19F NMR studies in chemical biology are shown in

• Figure 1. In general, relatively small monofluorinated amino acids such as 1–4, can be biosynthetically incorporated directly into proteins by including the fluorinated amino acid in the growth medium of a suitable auxotrophic bacterium [8]. However, a challenge when producing 19F-labelled proteins using

• ) and for the incorporation of 5-fluorotryptophan (1) and 6-fluorotryptophan (2) in streptavidin [14]. Parallel to the development of these new strategies for recombinant fluorinated protein production, significant efforts have been made within the last decade to expand the pool of available amino acids

The preparation and properties of 1,1-difluorocyclopropane derivatives

• Kymbat S. Adekenova,
• Peter B. Wyatt and
• Sergazy M. Adekenov

Beilstein J. Org. Chem. 2021, 17, 245–272, doi:10.3762/bjoc.17.25

Molecular basis for protein–protein interactions

• Brandon Charles Seychell and
• Tobias Beck

Beilstein J. Org. Chem. 2021, 17, 1–10, doi:10.3762/bjoc.17.1

• ], producing two different modes of binding: pH-dependent and salt-dependent binding mechanisms. In a pH-dependent binding mechanism, an overall proton is either released or taken up during the protein interaction due to the binding-induced pKa shift of acidic or basic amino acids present at the complex

• interface. Due to this shift, the interface amino acids experience either a significant desolvation energy, where there is a disruption in the residue charge–water interaction, resulting in water exclusion, and thus a hydrophobic effect [50], or an interaction in the complex formation. An example of the pH

• amino acid propensities at the protein–protein interface. They discussed that a large portion of the amino acids present at the interface (as large as 75%) are involved in so-called bifurcated interactions, where residues take part in both inter- and intraprotein interactions simultaneously. Both

Semiautomated glycoproteomics data analysis workflow for maximized glycopeptide identification and reliable quantification

• Steffen Lippold,
• Arnoud H. de Ru,
• Jan Nouta,
• Peter A. van Veelen,
• Magnus Palmblad,
• Manfred Wuhrer and
• Noortje de Haan

Beilstein J. Org. Chem. 2020, 16, 3038–3051, doi:10.3762/bjoc.16.253

• high complexity of glycosylation itself, data analysis is further complicated by interfering background signals from biological matrices and isomeric and near-isobaric ambiguities resulting from combinations of monosaccharides, adducts, amino acids, and amino acid modifications [10][11]. Efforts have

• five technical replicates by Byonic. This IgG3 glycopeptide is an isomer of the tryptic IgG4 glycopeptide (EEQFNSTYR). However, upon manual inspection of the data, only one scan of the assigned MS/MS spectra within all five technical replicates covered the relevant amino acids (position of Phe and Tyr

Selected peptide-based fluorescent probes for biological applications

• Debabrata Maity

Beilstein J. Org. Chem. 2020, 16, 2971–2982, doi:10.3762/bjoc.16.247

• recognition; peptide-based; Introduction Molecular recognition involving amino acids or peptides are important factors in biochemical and medicinal processes [1][2][3]. Amino acids work as biosynthetic building blocks or as signaling molecules. For example, the well-known neurotransmitters glutamate and γ

• ]. Peptides are comparatively small and can be easily synthesized in the laboratory using standard synthetic protocols [14][15]. The peptide sequence can be manipulated with precise functional groups of amino acids for selective targeting biomolecules. Peptides are large enough to contain a significant number

• which have affinity for the CB[8] cavity. These substrates easily displace 6 from the CB[8] cavity and release 6 which folds again to form a pyrene excimer, which allows for the ratiometric fluorescence monitoring of those substrates. Upon screening methyl ester derivatives of hydrophobic amino acids

UV resonance Raman spectroscopy of the supramolecular ligand guanidiniocarbonyl indole (GCI) with 244 nm laser excitation

• Tim Holtum,
• Vikas Kumar,
• Daniel Sebena,
• Jens Voskuhl and
• Sebastian Schlücker

Beilstein J. Org. Chem. 2020, 16, 2911–2919, doi:10.3762/bjoc.16.240

• UVRR approach from peptides to proteins as binding partners for GCPs is the UV-excited autofluorescence from aromatic amino acids observed for laser excitation wavelengths >260 nm. These excitation wavelengths are in the electronic resonance with the GCP for achieving both a signal enhancement and the

• using 275 and 266 nm laser excitation, respectively. The current challenge with UVRR spectroscopy for monitoring the recognition of supramolecular ligands to proteins is the disturbing UV-excited autofluorescence from the aromatic amino acids. This autofluorescence typically occurs in the spectral range

Optical detection of di- and triphosphate anions with mixed monolayer-protected gold nanoparticles containing zinc(II)–dipicolylamine complexes

• Lena Reinke,
• Julia Bartl,
• Marcus Koch and
• Stefan Kubik

Beilstein J. Org. Chem. 2020, 16, 2687–2700, doi:10.3762/bjoc.16.219

• described for analytes ranging from inorganic ions over low-molecular-weight neutral and charged organic compounds, such as carboxylic acids, amino acids, and nucleotides, to larger biomolecules such as peptides and proteins [1][2][3][4][5][6][13]. All of these systems have specific areas of application