Synthesis of esters of diaminotruxillic bis-amino acids by Pd-mediated photocycloaddition of analogs of the Kaede protein chromophore

• Esteban P. Urriolabeitia,
• Pablo Sánchez,
• Alexandra Pop,
• Cristian Silvestru,
• Eduardo Laga,
• Ana I. Jiménez and
• Carlos Cativiela

Beilstein J. Org. Chem. 2020, 16, 1111–1123, doi:10.3762/bjoc.16.98

• complexes 4. Treatment of 4 with CO in a MeOH/NCMe mixture promoted the methoxycarbonylation of the palladated carbon and the release of the corresponding ortho-functionalized 1,3-diaminotruxillic bis-amino esters 5 as single isomers. Keywords: amino acids; C–H activation; Kaede protein; oxazolones

• ortho-position of the 2,4-aryl rings in the resulting bis-amino acids can be functionalized [30]. Substrates of the (Z)-4-arylidene-2((E)-styryl)-5(4H)-oxazolone type, shown in Figure 2b, are interesting starting materials for the synthesis of new 1,3-diaminotruxillic derivatives. These azlactones are

• findings were also confirmed by analysis of the 13C NMR spectra. Conclusion The synthesis of cyclobutane 1,3-diaminotruxillic bis-amino acids has been achieved with full stereoselectivity (ε-isomer) starting from polyfunctional oxazolones 2 derived from the chromophore of the Kaede protein in three steps

Fluorinated phenylalanines: synthesis and pharmaceutical applications

• Laila F. Awad and
• Mohammed Salah Ayoup

Beilstein J. Org. Chem. 2020, 16, 1022–1050, doi:10.3762/bjoc.16.91

• . Incorporation of fluorinated aromatic amino acids into proteins increases their catabolic stability especially in therapeutic proteins and peptide-based vaccines. This review seeks to summarize the different synthetic approaches in the literature to prepare ᴅ- or ʟ-fluorinated phenylalanines and their

• , geometry, conformation, reactivity, and moreover the bioavailability of the analogue [1]. Fluorinated amino acids (FAAs) have considerable industrial and pharmaceutical potential [2]. Also, they have played an important role as enzyme inhibitors as well as therapeutic agents [3][4]. Moreover, they modulate

• membrane permeability and reactivity [11][12][13][14]. The effect of peptide structure and stability has been found to depend on the position and number of fluorine atoms within the amino acid chains [15][16][17]. Incorporation of fluorinated aromatic amino acids into proteins can increase their shelf life

Fabclavine diversity in Xenorhabdus bacteria

• Sebastian L. Wenski,
• Harun Cimen,
• Natalie Berghaus,
• Sebastian W. Fuchs,
• Selcuk Hazir and
• Helge B. Bode

Beilstein J. Org. Chem. 2020, 16, 956–965, doi:10.3762/bjoc.16.84

• formula [28]. The general structure of the fabclavines is highly conserved and differs only in the specified moieties as shown in Table 1. The NRPS part of the full-length fabclavines harbors six amino acids, whereby the second position (R1) varies between phenylalanine (Phe), histidine (His), and alanine

• of two A-domains A2 and A6 in the NRPSs FclI and FclJ (Figure 1) [22]. Surprisingly, the key residues of these domains are highly conserved or identical, even between strains that differ in the incorporated amino acids (Table S6, Supporting Information File 1). This indicates the involvement of

Recent applications of porphyrins as photocatalysts in organic synthesis: batch and continuous flow approaches

• Rodrigo Costa e Silva,
• Luely Oliveira da Silva,
• Aloisio de Andrade Bartolomeu,
• Timothy John Brocksom and
• Kleber Thiago de Oliveira

Beilstein J. Org. Chem. 2020, 16, 917–955, doi:10.3762/bjoc.16.83

• using 4 mol % of tetra-n-butylammonium fluoride (TBAF) as an activator of TMSCN (conditions B). Following this second protocol, the primary α-aminonitriles were rapidly prepared in relevant yields (up to 87%) and converted to the corresponding α-amino acids by hydrolysis of the nitrile (Scheme 57

Synthesis of new asparagine-based glycopeptides for future scanning tunneling microscopy investigations

• Laura Sršan and
• Thomas Ziegler

Beilstein J. Org. Chem. 2020, 16, 888–894, doi:10.3762/bjoc.16.80

• cell surfaces for future investigations by combined preparative mass spectroscopy and scanning tunneling microscopy (STM) using soft-landing electrospray beam deposition (ES-IBD), on metal surfaces. Keywords: amino acids; asparagine; carbohydrates; glycopeptides; peptidomimetics; Introduction

• example, in anti-HIV therapy, MUC1-based antitumor vaccines, or as antibiotics [12][13][14]. Especially glycans bearing noncanonical amino acids, which can only be introduced into a peptide by organic synthesis, are suitable for cancer therapy since they show better resistance to enzymatic degradation in

• comparison with naturally occurring amino acids [14]. Thus, there is still a great effort in finding new potential drugs derived from glycopeptides [4][15]. By using preparative mass spectrometry (pMS) combined with STM on submolecular-resolution peptides and carbohydrates can be investigated regarding their

Photocatalytic deaminative benzylation and alkylation of tetrahydroisoquinolines with N-alkylpyrydinium salts

• David Schönbauer,
• Carlo Sambiagio,
• Timothy Noël and
• Michael Schnürch

Beilstein J. Org. Chem. 2020, 16, 809–817, doi:10.3762/bjoc.16.74

• from amino acids gave a complex reaction mixture, and the desired products could not be isolated. Additionally, alkyl salts derived from primary amines were unreactive. For the more stable allyl radicals, our initially optimized conditions with [Ru(bpy)3]Cl2 in DMA/ACN were again applicable and the

Recent advances in Cu-catalyzed C(sp³)–Si and C(sp³)–B bond formation

• Balaram S. Takale,
• Ruchita R. Thakore,
• Elham Etemadi-Davan and
• Bruce H. Lipshutz

Beilstein J. Org. Chem. 2020, 16, 691–737, doi:10.3762/bjoc.16.67

• give excellent chemical yields with good enantioselectivities for products 57–59 (Scheme 14). Interestingly, this approach could be extended to the synthesis of amino acids using cesium fluoride in the presence of CO2 gas to afford 60 and 61. From the representative examples shown below, it appears

Photocontrolled DNA minor groove interactions of imidazole/pyrrole polyamides

• Sabrina Müller,
• Jannik Paulus,
• Jochen Mattay,
• Heiko Ihmels,
• Veronica I. Dodero and
• Norbert Sewald

Beilstein J. Org. Chem. 2020, 16, 60–70, doi:10.3762/bjoc.16.8

• systematically increased the number of binding motifs, and thus achieved sequence-specific binding [6][7][8][9]. Selectively binding polyamides adopt an antiparallel hairpin structure where a base pair of the DNA is addressed by a pair of the heterocyclic amino acids in the hairpin assembly. Overall, specific

• required because this allowed for an alignment between hydrogen-bonding groups in long polyamides and in the minor groove of DNA [41]. The Fmoc-protected heterocyclic amino acids 2 were obtained from N-methylpyrrole and N-methylimidazole, respectively (Scheme 2A). The N-terminal N-methylpyrrole and N

Understanding the role of active site residues in CotB2 catalysis using a cluster model

• Keren Raz,
• Ronja Driller,
• Thomas Brück,
• Bernhard Loll and
• Dan T. Major

Beilstein J. Org. Chem. 2020, 16, 50–59, doi:10.3762/bjoc.16.7

• relevant, i.e., that have a ligand bound in a reactive configuration and have a fully closed active site. Recently, a crystal structure of the CotB2 enzyme that met these criteria was published [42]. In the current work, we describe the crucial role of the amino acids in the active site on the reaction

• energetics using QM calculations in an active site cluster model. The active site cluster theozyme model [43][44] was constructed from the crystal structure coordinates of active site amino acids, which were presumed to stabilize the carbocations during the reaction cascade. Each reaction step's relevant

• and co-workers [39]. The amino acid cage was constructed from six amino acids, which were located around the substrate and constituted part of the catalytic pocket of the enzyme (PDB-ID 6GGI) [42]. The chosen amino acids were the ones that we presumed stabilized the carbocations the most during the

Light-controllable dithienylethene-modified cyclic peptides: photoswitching the in vivo toxicity in zebrafish embryos

• Sergii Afonin,
• Oleg Babii,
• Aline Reuter,
• Volker Middel,
• Masanari Takamiya,
• Uwe Strähle,
• Igor V. Komarov and
• Anne S. Ulrich

Beilstein J. Org. Chem. 2020, 16, 39–49, doi:10.3762/bjoc.16.6

• plasma stability in vivo, limited understanding of their mechanisms of action, and high in vivo toxicity. The former two drawbacks are being adequately resolved [9] (e.g., by modifying the peptide backbone [10], macrocyclization [11], or by use of unnatural amino acids [12]), and mechanistic

Extension of the 5-alkynyluridine side chain via C–C-bond formation in modified organometallic nucleosides using the Nicholas reaction

• Renata Kaczmarek,
• Dariusz Korczyński,
• James R. Green and
• Roman Dembinski

Beilstein J. Org. Chem. 2020, 16, 1–8, doi:10.3762/bjoc.16.1

• intramolecular versions of the reaction are also highly successful [50][51]. Although the Nicholas reaction has been employed to functionalize biomolecules, including amino acids [52][53], β-lactams [54], steroids [55], and carbohydrates [56][57][58][59][60][61][62], we are unaware of any examples of nucleoside

Why do thioureas and squaramides slow down the Ireland–Claisen rearrangement?

• Dominika Krištofíková,
• Juraj Filo,
• Mária Mečiarová and
• Radovan Šebesta

Beilstein J. Org. Chem. 2019, 15, 2948–2957, doi:10.3762/bjoc.15.290

• diastereoselectivities, and ees up to 86% [26]. Rearrangement of allyl esters of glycine derivatives gave under similar conditions amino acids with a quaternary stereocenter on the β-carbon with high yields and excellent diastereo- as well as enantioselectivity [5]. A reductive rearrangement of allyl esters of acrylic

Chemical synthesis of tripeptide thioesters for the biotechnological incorporation into the myxobacterial secondary metabolite argyrin via mutasynthesis

• David C. B. Siebert,
• Roman Sommer,
• Domen Pogorevc,
• Michael Hoffmann,
• Silke C. Wenzel,
• Rolf Müller and
• Alexander Titz

Beilstein J. Org. Chem. 2019, 15, 2922–2929, doi:10.3762/bjoc.15.286

• , i.e., the target for the mutasynthons of this work, is color coded as product of the Arg2 synthetase and in the resulting final argyrin molecule. Designed mutasynthons 9–14 for argyrin biosynthesis. Peptides are based on three amino acids and additionally bear the thioester moiety mimicking the native

Bacterial terpene biosynthesis: challenges and opportunities for pathway engineering

• Eric J. N. Helfrich,
• Geng-Min Lin,
• Christopher A. Voigt and
• Jon Clardy

Beilstein J. Org. Chem. 2019, 15, 2889–2906, doi:10.3762/bjoc.15.283

• rearrangements, creating the basic hydrocarbon skeleton of a terpene [10][11]. This basic hydrocarbon skeleton is then modified to generate a large number of terpenoid structures, which can be further modified by addition of other building blocks, like sugars, amino acids, or fatty acids [12]. Terpenes are named

Emission and biosynthesis of volatile terpenoids from the plasmodial slime mold Physarum polycephalum

• Xinlu Chen,
• Tobias G. Köllner,
• Wangdan Xiong,
• Guo Wei and
• Feng Chen

Beilstein J. Org. Chem. 2019, 15, 2872–2880, doi:10.3762/bjoc.15.281

• genes were identified from the transcriptomes. They were designated as PpolyTPS1, PpolyTPS2, PpolyTPS3, and PpolyTPS4. The length of the proteins encoded by PpolyTPS1, PpolyTPS2, PpolyTPS3, and PpolyTPS4s is 334, 347, 353, and 337 amino acids, respectively. Among the four proteins, the highest sequence

Palladium-catalyzed synthesis and nucleotide pyrophosphatase inhibition of benzo[4,5]furo[3,2-b]indoles

• Hoang Huy Do,
• Saif Ullah,
• Alexander Villinger,
• Joanna Lecka,
• Jean Sévigny,
• Peter Ehlers,
• Jamshed Iqbal and
• Peter Langer

Beilstein J. Org. Chem. 2019, 15, 2830–2839, doi:10.3762/bjoc.15.276

• bonding was found between the oxygen of the benzofuran ring and the hydrogens of Lys291. When compound 6a was docked inside the active pocket of the homology model, it represented π–π stacked and π–alkyl attachment of the indole rings on both sides of the molecule with amino acids His380 and Lys295

• . Suramin was used as a positive control. The 3D illustrations of these docked compounds are shown in Figure 5. The binding was observed in a large area of the modelled ENPP3 protein, inside and over the border of the active pocket, due to the bulky structure of suramin. The amino acids Asn290, Ser292

• 52% in case of ENPP3, amino acids sequence similarity with template, mouse ENPP1. The RMSD for ENPP1 was 0.613 Å and 1.349 Å for ENPP3, over 816 and 811 residues in comparison to the template, respectively. The Ramachandran plot represented promising stereochemical properties as above 98% amino acids

Combining the Ugi-azide multicomponent reaction and rhodium(III)-catalyzed annulation for the synthesis of tetrazole-isoquinolone/pyridone hybrids

• Gerardo M. Ojeda,
• Prabhat Ranjan,
• Pavel Fedoseev,
• Lisandra Amable,
• Upendra K. Sharma,
• Daniel G. Rivera and
• Erik V. Van der Eycken

Beilstein J. Org. Chem. 2019, 15, 2447–2457, doi:10.3762/bjoc.15.237

• in the literature supporting the chelation of metal centers by a tetrazole ring during the C–H activation processes, in which the tetrazole may also act as directing group [55][56][57][58][59][60][61]. The closely related triazole ring has also been used for the C–H modification of amino acids and

Sugar-derived oxazolone pseudotetrapeptide as γ-turn inducer and anion-selective transporter

• Sachin S. Burade,
• Sushil V. Pawar,
• Tanmoy Saha,
• Navanath Kumbhar,
• Amol S. Kotmale,
• Manzoor Ahmad,
• Pinaki Talukdar and
• Dilip D. Dhavale

Beilstein J. Org. Chem. 2019, 15, 2419–2427, doi:10.3762/bjoc.15.234

• peptides from C-3 fluorinated ᴅ-glucofuranoid amino acids and demonstrated their selective anion transport activity [17][18]. In continuation of our interest in sugar-derived cyclic peptides [19], we aimed to synthesize cyclic peptides I and II from the corresponding linear di- and tetrapeptides, however

Current understanding and biotechnological application of the bacterial diterpene synthase CotB2

• Ronja Driller,
• Daniel Garbe,
• Norbert Mehlmer,
• Monika Fuchs,
• Keren Raz,
• Dan Thomas Major,
• Thomas Brück and
• Bernhard Loll

Beilstein J. Org. Chem. 2019, 15, 2355–2368, doi:10.3762/bjoc.15.228

• sequences of other bacterial TPSs for the presence of the RY pair, also called “basic pair” [61][62] and their flanking regions, led to the identification of a conserved tryptophan six amino acids upstream of the RY pair (Figure 6) [37]. In CotB2, residues of the motif are located at the end of the C

• binding of GGDP and the cyclization reaction. Based on 2H- as well as 13C-isotope labeling experiments a surprising reaction mechanism has been derived (Scheme 2) [35]. Strong support for the proposed reaction mechanism has been predominantly provided by site-directed mutagenesis of amino acids with an

• . Cyclization is initiated by cleavage of the GGDP diphosphate moiety. After two consecutive cyclization reactions, a dolabellatrienyl cation (A) is generated, stabilized by π-cation interactions with W186 (Scheme 2 and Figure 7). Whereas mutation of this residue to amino acids with aromatic character mainly

Isolation of fungi using the diffusion chamber device FIND technology

• Benjamin Libor,
• Henrik Harms,
• Stefan Kehraus,
• Ekaterina Egereva,
• Max Crüsemann and
• Gabriele M. König

Beilstein J. Org. Chem. 2019, 15, 2191–2203, doi:10.3762/bjoc.15.216

• (experiment 1: amino acids/peptone, antibiotics; experiments 2–4: ditto, but in sea water) to yield the desired concentration of roughly 320 000 fungal parts/L. Then, the central plate of FIND (Scheme 1) was lowered into these preparations to fill each chamber with an agar solution, containing in average one

Isolation and characterisation of irinans, androstane-type withanolides from Physalis peruviana L.

• Annika Stein,
• Dave Compera,
• Bianka Karge,
• Mark Brönstrup and
• Jakob Franke

Beilstein J. Org. Chem. 2019, 15, 2003–2012, doi:10.3762/bjoc.15.196

• Salt Solution (Gibco) without Ca and Mg, trypsinized and re-suspended in Dulbecco’s modified eagle’s medium that contained 5% fetal bovine serum (FBS; L929, KB-3-1, A549) or Roswell Park Memorial Institute medium that contained 5% FBS, 0.5% Minimum Essential Medium Non-Essential Amino Acids, Gibco (MEM

Complexation of chiral amines by resorcin[4]arene sulfonic acids in polar media – circular dichroism and diffusion studies of chirality transfer and solvent dependence

• Bartosz Setner and
• Agnieszka Szumna

Beilstein J. Org. Chem. 2019, 15, 1913–1924, doi:10.3762/bjoc.15.187

• protein crystallizations. Due to the interest in interactions with proteins we have selected basic amino acids as chiral bidentate amines to interact with RSAs. We have also studied interactions of RSAs with chiral tetradentate ligands (tetraaminocavitands) in order to evaluate the influence of a chelate

• complexation between 1 and (R or S)-2) or 1:5 stoichiometric ratio (for complexation between 1 and amino acids methyl esters). In all cases except monodentate amines (PheOMe, ValOMe) we observed precipitation of the complexes. Samples [1(PheOMe)2] and [1(ValOMe)2] were obtained by mixing of 1 with PheOMe∙HCl

• with methyl esters of amino acids The complexes of 1 with LysOMe, ArgOMe, and HisOMe precipitate from water solutions at pH 7 (sodium acetate buffer). The complexes are soluble in methanol and DMSO. The composition of the precipitated complexes was determined by integration of signals in 1H NMR spectra

N-(1-Phenylethyl)aziridine-2-carboxylate esters in the synthesis of biologically relevant compounds

• Iwona E. Głowacka,
• Aleksandra Trocha,
• Andrzej E. Wróblewski and
• Dorota G. Piotrowska

Beilstein J. Org. Chem. 2019, 15, 1722–1757, doi:10.3762/bjoc.15.168

• medications as well as of natural products mostly alkaloids but also sphingoids and ceramides and their 1- and 3-deoxy analogues and several hydroxy amino acids and their precursors. Designed strategies provided new procedures to several drugs and alternative approaches to natural products and proved

• efficiency of a 2-substituted N-(1-phenylethyl)aziridine framework as chiron bearing a chiral auxiliary. Keywords: alkaloids; amino acids; asymmetric synthesis; ceramides; chiral catalysis; chiral pool; N-(1-phenylethyl)aziridine chiron; sphingoids; Introduction The synthesis of enantiomerically pure

• for structural enlargement and at least one stereogenic center which is usually transferred into the final product. To assure the highest possible enantiomeric purity chirons are obtained in most instances from natural products like carbohydrates, amino acids, hydroxy acids or terpenes. The

Recent advances on the transition-metal-catalyzed synthesis of imidazopyridines: an updated coverage

• Gagandeep Kour Reen,
• Ashok Kumar and
• Pratibha Sharma

Beilstein J. Org. Chem. 2019, 15, 1612–1704, doi:10.3762/bjoc.15.165

Synthesis and conformational preferences of short analogues of antifreeze glycopeptides (AFGP)

• Małgorzata Urbańczyk,
• Michał Jewgiński,
• Joanna Krzciuk-Gula,
• Jerzy Góra,
• Rafał Latajka and
• Norbert Sewald

Beilstein J. Org. Chem. 2019, 15, 1581–1591, doi:10.3762/bjoc.15.162

• synthesis, the best yields were achieved for incorporation of natural amino acids into the peptide chain, where 1.2 equiv of glycosylated threonine were applied. NMR measurements were performed in order to elucidate the stereochemical influence of the amino acid configuration on the three-dimensional

• and Cβ carbons of the glycosylated Thr residue. The all-ᴅ-configured pentapeptide 4 turned out to adopt a much more rigid structure in comparison to the corresponding peptide 3 containing only ʟ-amino acids. Moreover, pentapeptide 4 showed the ability to “lock” the orientation of the carbohydrate ring

• ]. General methods All air- and moisture-sensitive reactions were carried out in a dry argon atmosphere in flame-dried glass flasks. Dichloromethane (DCM) was freshly distilled from CaH2 and toluene from Na. N,N-Dimethylformamide (DMF) was distilled from ninhydrine. All amino acids, coupling reagents and the