Complete 13C Research Articles

Integrating Umpolung and CO2 Shuttling Strategies for the Synthesis of 12C- and 13C-α-Ketoacids from Aldehydes.

The direct carboxylation of aldehydes with CO2 is rare due to the polarity mismatch between these two electrophilic substrates. To address this challenge, we propose a sequential approach for synthesizing α-ketoacids from commercially available aldehydes by integrating umpolung and CO2 shuttling strategies. This transition metal-free shuttle carboxylation method enables the transfer of CO2 from triphenylacetic acid potassium salt to thioacetal, eliminating the need for handling pressurized CO2 gas or using specialized equipment, while also enhancing the reaction's functional group tolerance. Furthermore, the use of stoichiometric or slightly excess amounts of triphenylacetic acid potassium salt as a formal CO2 donor makes it suitable for complete 13C labeling of α-ketoacids.

Complete 1H and 13C NMR assignment of cellulose oligomer in LiCl/DMSO

High-resolution solution-state 1H, 13C, and various 2D nuclear magnetic resonance (NMR) spectra of cellulose were obtained using cellulose oligomer dissolved in LiCl/dimethyl sulfoxide, which enabled the assignment of all 1H and 13C resonances. The observed resonances were classified into four groups of glucose rings, corresponding to internal residue, non-reducing end, and reducing ends with α- and β-anomeric configurations. This assignment included the OH protons, which are difficult to assign in cellulose using other solvent systems. NMR measurements and assignments were performed using different LiCl concentrations because information on the hydroxy protons is important for understanding the interaction between cellulose and the solvent. The resonances from the OH protons shifted downfield with increasing LiCl concentration, suggesting that LiCl was attracted to the hydroxy groups of cellulose in solution. Moreover, the magnitude of the shifts varied depending on the positions of the hydroxy groups, which indicated the regioselectivity of the interaction between LiCl and the cellulose hydroxy groups.Graphical abstract

From mother's milk to structural insights: 1H–15N NMR analysis of Lewis X antigen-bearing oligosaccharides isolated from human milk

Human milk oligosaccharides (HMOs) are complex unconjugated glycans abundant in breast milk, with vital roles in infant nutrition and health. The structural elucidation of HMOs remains challenging due to their diverse compositions and isomeric complexities. This study presents a novel approach employing 1H–15N NMR correlations to pinpoint and characterize HMOs, LNH, LNnH, and their fucosylated derivatives including those of bearing the Lewis X motif. Isolated from human milk, these hexa-, hepta-, and octasaccharides were extensively analysed by NMR. This enabled their first complete 1H, 13C and 15N resonance assignments. Using 1H–15N HSQC experiments, the distinctive 1H–15N correlations of GlcNAc units within the HMOs provided structural fingerprints, allowing for unequivocal differentiation of isomeric structures and fucosylation patterns. Results demonstrate the potential of 1H–15N NMR spectroscopy in decoding complex HMO structures, offering new perspectives on their detailed structural characterization and contributing to a deeper understanding of their potential benefits.

Isolation of 8 ß -hydroxy-goyazensanolide from Eremanthus argenteus and the complete and unequivocal 1H and 13C NMR data assignment for this sesquiterpene lactone

This work describes the first isolation of 8 ß-hydroxy-goyazensanolide from Eremanthus argenteus and the complete and unequivocal 1H and 13C NMR assignments for this compound. The assignments were carried out in the means of spectroscopic data from 1H NMR, 13C{1H} NMR, gCOSY, gHMQC, gHMBC and J-resolved experiments. All hydrogen homonuclear coupling constants were measured, and all hydrogen signals multiplicities were clarified. This is the first report of 13C NMR data for this sesquiterpene lactone to our knowledge.

17-Oxime ethers of oxidized ecdysteroid derivatives modulate oxidative stress in human brain endothelial cells and dose-dependently might protect or damage the blood-brain barrier.

20-Hydroxyecdysone and several of its oxidized derivatives exert cytoprotective effect in mammals including humans. Inspired by this bioactivity of ecdysteroids, in the current study it was our aim to prepare a set of sidechain-modified derivatives and to evaluate their potential to protect the blood-brain barrier (BBB) from oxidative stress. Six novel ecdysteroids, including an oxime and five oxime ethers, were obtained through regioselective synthesis from a sidechain-cleaved calonysterone derivative 2 and fully characterized by comprehensive NMR techniques revealing their complete 1H and 13C signal assignments. Surprisingly, several compounds sensitized hCMEC/D3 brain microvascular endothelial cells to tert-butyl hydroperoxide (tBHP)-induced oxidative damage as recorded by impedance measurements. Compound 8, containing a benzyloxime ether moiety in its sidechain, was the only one that exerted a protective effect at a higher, 10 μM concentration, while at lower (10 nM- 1 μM) concentrations it promoted tBHP-induced cellular damage. Brain endothelial cells were protected from tBHP-induced barrier integrity decrease by treatment with 10 μM of compound 8, which also mitigated the intracellular reactive oxygen species production elevated by tBHP. Based on our results, 17-oxime ethers of oxidized ecdysteroids modulate oxidative stress of the BBB in a way that may point towards unexpected toxicity. Further studies are needed to evaluate any possible risk connected to dietary ecdysteroid consumption and CNS pathologies in which BBB damage plays an important role.

Chemical shift assignments of the ACID domain of MED25, a subunit of the mediator complex in Arabidopsis thaliana.

Mediator complex is a key component that bridges various transcription activators and RNA polymerase during eukaryotic transcription initiation. The Arabidopsis thaliana Med25 (aMed25), a subunit of the Mediator complex, plays important roles in regulating hormone signaling, biotic and abiotic stress responses and plant development by interacting with a variety of transcription factors through its activator-interacting domain (ACID). However, the recognition mechanism of aMed25-ACID for various transcription factors remains unknown. Here, we report the nearly complete 1H, 13C, and 15N backbone and side chain resonance assignments of aMED25-ACID (residues 551-681). TALOS-N analysis revealed that aMED25-ACID structure is comprised of three α-helices and seven β-strands, which lacks the C-terminal α-helix existing in the human MED25-ACID. This study lays a foundation for further research on the structure-function relationship of aMED25-ACID.

An integrated approach towards extracting structural characteristics of chlorosomes from a bchQ mutant of Chlorobaculum tepidum.

Chlorosomes, the photosynthetic antenna complexes of green sulfur bacteria, are paradigms for light-harvesting elements in artificial designs, owing to their efficient energy transfer without protein participation. We combined magic angle spinning (MAS) NMR, optical spectroscopy and cryogenic electron microscopy (cryo-EM) to characterize the structure of chlorosomes from a bchQ mutant of Chlorobaculum tepidum. The chlorosomes of this mutant have a more uniform composition of bacteriochlorophyll (BChl) with a predominant homolog, [8Ethyl, 12Ethyl] BChl c, compared to the wild type (WT). Nearly complete 13C chemical shift assignments were obtained from well-resolved homonuclear 13C-13C RFDR data. For proton assignments heteronuclear 13C-1H (hCH) data sets were collected at 1.2 GHz spinning at 60 kHz. The CHHC experiments revealed intermolecular correlations between 132/31, 132/32, and 121/31, with distance constraints of less than 5 Å. These constraints indicate the syn-anti parallel stacking motif for the aggregates. Fourier transform cryo-EM data reveal an axial repeat of 1.49 nm for the helical tubular aggregates, perpendicular to the inter-tube separation of 2.1 nm. This axial repeat is different from WT and is in line with BChl syn-anti stacks running essentially parallel to the tube axis. Such a packing mode is in agreement with the signature of the Qy band in circular dichroism (CD). Combining the experimental data with computational insight suggests that the packing for the light-harvesting function is similar between WT and bchQ, while the chirality within the chlorosomes is modestly but detectably affected by the reduced compositional heterogeneity in bchQ.

1H and 13C chemical shift-structure effects in anhydrous β-caffeine and four caffeine-diacid cocrystals probed by solid-state NMR experiments and DFT calculations.

By using density functional theory (DFT) calculations, we refined the H atom positions in the structures of β-caffeine (C), α-oxalic acid (OA; (COOH)2), α-(COOH)2·2H2O, β-malonic acid (MA), β-glutaric acid (GA), and I-maleic acid (ME), along with their corresponding cocrystals of 2 : 1 (2C-OA, 2C-MA) or 1 : 1 (C-GA, C-ME) stoichiometry. The corresponding 13C/1H chemical shifts obtained by gauge including projector augmented wave (GIPAW) calculations agreed overall very well with results from magic-angle-spinning (MAS) nuclear magnetic resonance (NMR) spectroscopy experiments. Chemical-shift/structure trends of the precursors and cocrystals were examined, where good linear correlations resulted for all COO1H sites against the H⋯O and/or H⋯N H-bond distance, whereas a general correlation was neither found for the aliphatic/caffeine-stemming 1H sites nor any 13C chemical shift against either the intermolecular hydrogen- or tetrel-bond distance, except for the 13COOH sites of the 2C-OA, 2C-MA, and C-GA cocrystals, which are involved in a strong COOH⋯N bond with caffeine that is responsible for the main supramolecular stabilization of the cocrystal. We provide the first complete 13C NMR spectral assignment of the structurally disordered anhydrous β-caffeine polymorph. The results are discussed in relation to previous literature on the disordered α-caffeine polymorph and the ordered hydrated counterpart, along with recommendations for NMR experimentation that will secure sufficient 13C signal-resolution for reliable resonance/site assignments.

Structural and dynamical investigation of histone H2B in well-hydrated nucleosome core particles by solid-state NMR

H2A-H2B dimer is a key component of nucleosomes and an important player in chromatin biology. Here, we characterized the structure and dynamics of H2B in precipitated nucleosome core particles (NCPs) with a physiologically relevant concentration using solid-state NMR. Our recent investigation of H3-H4 tetramer determined its unique dynamic properties and the present work provides a deeper understanding of the previously observed dynamic networks in NCP that is potentially functionally significant. Nearly complete 13C, 15N assignments were obtained for H2B R30-A121, which permit extracting unprecedented detailed structural and amino-acid site-specific dynamics. The derived structure of H2B in the well-hydrated NCP sample agrees well with that of X-ray crystals. Dynamics at different timescales were determined semi-quantitatively for H2B in a site-specific manner. Particularly, higher millisecond-microsecond dynamics are observed for H2B core regions including partial α1, L1, partial α2, and partial L3. The analysis of these regions in the context of the tertiary structure reveals the clustering of dynamical residues. Overall, this work fills a gap to a complete resonance assignment of all four histones in nucleosomes and delineates that the dynamic networks in NCP extend to H2B, which suggests a potential mechanism to couple histone core with distant DNA to modulate the DNA activities.

Inside Cover: A Single‐Scan Ultraselective Heteronuclear Polarization Transfer Method for Unambiguous Complex Structure Assignment (Angew. Chem. Int. Ed. 32/2023)

The unambiguous assignment of NMR signals to complex organic molecules or mixtures is a challenge. In their Research Article (e202304196), Jin Wook Cha, Min-Seon Kim, and Jin-Soo Park suggest an ultrahigh-resolution single-scan NMR method that enables to acquire a hertz-level signal selectivity in both 1H, 13C and their correlation spectra. The method was applied to compounds with high NMR signal complexity, such as chromopeptide and diastereomeric mixtures, and resulted in complete 1H and 13C NMR signal assignment of individual subunits and epimers.

Innentitelbild: A Single‐Scan Ultraselective Heteronuclear Polarization Transfer Method for Unambiguous Complex Structure Assignment (Angew. Chem. 32/2023)

The unambiguous assignment of NMR signals to complex organic molecules or mixtures is a challenge. In their Research Article (e202304196), Jin Wook Cha, Min-Seon Kim, and Jin-Soo Park suggest an ultrahigh-resolution single-scan NMR method that enables to acquire a hertz-level signal selectivity in both 1H, 13C and their correlation spectra. The method was applied to compounds with high NMR signal complexity, such as chromopeptide and diastereomeric mixtures, and resulted in complete 1H and 13C NMR signal assignment of individual subunits and epimers.

Structural Requirements for Ga3+ Coordination in Synthetic Analogues of the Siderophore Piscibactin Deduced by Chemical Synthesis and Density Functional Theory Calculations.

Stereoselective total synthesis of several analogues of piscibactin (Pcb), the siderophore produced by different pathogenic Gram-negative bacteria, was performed. The acid-sensitive α-methylthiazoline moiety was replaced by a more stable thiazole ring, differing in the configuration of the OH group at the C-13 position. The ability of these Pcb analogues to form complexes with Ga3+ as a mimic of Fe3+ showed that the configuration of the hydroxyl group at C-13 as 13S is crucial for the chelation of Ga3+ to preserve the metal coordination, while the presence of a thiazole ring instead of the α-methylthiazoline moiety does not affect such coordination. A complete 1H and 13C NMR chemical shift assignment of the diastereoisomer mixtures around C9/C10 was done for diagnostic stereochemical disposition. Additionally, density functional theory calculations were performed not only for confirming the stereochemistry of the Ga3+ complex among the six possible diastereoisomers but also for deducing the ability of these to form octahedral coordination spheres with gallium. Finally, the lack of antimicrobial activity of Pcb and Pcb thiazole analogue Ga3+ complexes against Vibrio anguillarum agrees with one of the roles of siderophores in protecting pathogens from metal ion toxicity. The efficient metal coordination shown by this scaffold suggests its possible use as a starting point for the design of new chelating agents or vectors for the development of new antibacterials that exploit the "Trojan horse" strategy using the microbial iron uptake mechanisms. The results obtained will be of great help in the development of biotechnological applications for these types of compounds.

Preparation of Divergent Intermediates and Convergent Synthesis of Phytofluene

AbstractPractical synthetic methods for biogenetically and pharmaceutically important phytofluene were developed through the divergent preparation of key C20 substrates from a common intermediate and convergent synthesis by Wittig and Julia–Kocienski olefinations. Expeditious synthesis of phytofluene was also proposed based on the Julia sulfone-mediated chain-extension and double elimination method. Stereochemical outcomes of these olefination methods for phytofluene were compared and the Julia–Kocienski method was the mildest and most efficient reaction condition to produce all-(E)-phytofluene. Complete 1H and 13C NMR analysis of all-(E)-phytofluene is reported for the first time. Phytofluene undergoes facile thermal isomerization to other Z-isomers above room temperature, which was also confirmed with a C30 phytofluene homologue.

Highly Oxidized Ecdysteroids from a Commercial Cyanotis arachnoidea Root Extract as Potent Blood-Brain Barrier Protective Agents.

Ecdysteroid-containing herbal extracts, commonly prepared from the roots of Cyanotis arachnoidea, are marketed worldwide as a "green" anabolic food supplement. Herein are reported the isolation and complete 1H and 13C NMR signal assignments of three new minor ecdysteroids (compounds 2-4) from this extract. Compound 4 was identified as a possible artifact that gradually forms through the autoxidation of calonysterone. The compounds tested demonstrated a significant protective effect on the blood-brain barrier endothelial cells against oxidative stress or inflammation at a concentration of 1 μM. Based on these results, minor ecdysteroids present in food supplements may offer health benefits in various neurodegenerative disease states.

Computational Studies on Selected Macrolides Active against Escherichia coli Combined with the NMR Study of Tylosin A in Deuterated Chloroform.

Although many antibiotics are active against Gram-positive bacteria, fewer also show activity against Gram-negative bacteria. Here, we present a combination of in silico (electron ion-interaction potential, molecular docking, ADMET), NMR, and microbiological investigations of selected macrolides (14-membered, 15-membered, and 16-membered), aiming to discover the pattern of design for macrolides active against Gram-negative bacteria. Although the conformational studies of 14-membered and 15-membered macrolides are abundant in the literature, 16-membered macrolides, and their most prominent representative tylosin A, have received relatively little research attention. We therefore report the complete 1H and 13C NMR assignment of tylosin A in deuterated chloroform, as well as its 3D solution structure determined through molecular modelling (conformational search) and 2D ROESY NMR. Additionally, due to the degradation of tylosin A in deuterated chloroform, other species were also detected in 1D and 2D NMR spectra. We additionally studied the anti-bacterial activity of tylosin A and B against selected Gram-positive and Gram-negative bacteria.

Prosojuliflavone and other constituents from Prosopis juliflora Swartz D.C (Fabaceae) and their chemotaxonomic importance

The chemical investigation of ethyl acetate extracts of the roots and stem bark of Prosopis juliflora Swartz D.C (Fabaceae) led to the isolation of a new flavonoid, prosojuliflavone (1) and a new natural indole alkaloid dimer, N,N-Bis(2-(1H-indol-3-yl) ethyl) oxalamide (2) along with eight known compounds including three flavonoids, vitexin (3), a mixture of vitexin (3) and isovitexin (4), 4ʹ-O-methyl-ent-gallocathechin (5), two indole alkaloids, N-acetyltryptamine (6), tryptamine (7), a disaccharide, sucrose (8), two monoglycerides, hyloglyceride (9) and 1-(26-hydroxyhexacosanoyl)-glycerol (10). Their structures were elucidated by means of spectroscopic and spectrometric data, as well as by comparison with literature data. Compound 2 is described here for the first time as a natural product with complete 1H and 13C assignments. The antibacterial and antioxidant activities of the extracts and isolated compounds were evaluated. Compounds 1 and 5 (MIC = 8–64 μg/ml) were samples with most antibacterial activities while compound 1 (EC50 = 4.31 μg/mL; GEAC = 94.66 μg/mL) displayed the largest antioxidant activity. Interestingly, the tested samples showed bactericidal effects (MBC/MIC ≤4) with respect to sensitive bacteria. Compounds 1, 2, 6, 8 and 10 were isolated for the first time from the Fabaceae family. The chemotaxonomic significance of these compounds was also discussed. The overall results highlight the potential of P. juliflora as a sustainable source of antibacterial and antioxidant agents.

1H, 13C, 15 N backbone and side-chain NMR assignments for three MAX effectors from Magnaporthe oryzae

Effectors are small and very diverse proteins secreted by fungi and translocated in plant cells during infection. Among them, MAX effectors (for Magnaporthe Avrs and ToxB) were identified as a family of effectors that share an identical fold topology despite having highly divergent sequences. They are mostly secreted by ascomycetes from the Magnaporthe genus, a fungus that causes the rice blast, a plant disease leading to huge crop losses. As rice is the first source of calories in many countries, especially in Asia and Africa, this constitutes a threat for world food security. Hence, a better understanding of these effectors, including structural and functional characterization, constitutes a strategic milestone in the fight against phytopathogen fungi and may give clues for the development of resistant varieties of rice. We report here the near complete 1H, 15N and 13C NMR resonance assignment of three new putative MAX effectors (MAX47, MAX60 and MAX67). Secondary structure determination using TALOS-N and CSI.3 demonstrates a high content of β-strands in all the three proteins, in agreement with the canonic ß-sandwich structure of MAX effectors. This preliminary study provides foundations for further structural characterization, that will help in turn to improve sequence predictions of other MAX effectors through data mining.

NMR resonance assignments of mouse lipocalin-type prostaglandin D synthase/prostaglandin J2 complex

Lipocalin-type prostaglandin (PG) D synthase (L-PGDS) catalyzes the isomerization of PGH2 to produce PGD2, an endogenous somenogen, in the brains of various mammalians. We recently reported that various other PGs also bind to L-PGDS, suggesting that it could serve as an extracellular carrier for PGs. Although the solution and crystal structure of L-PGDS has been determined, as has the structure of L-PGDS complexed PGH2 analog, a structural analysis of L-PGDS complexed with other PGs is needed in order to understand the mechanism responsible for the PG trapping. Here, we report the nearly complete 1H, 13C, and 15N backbone and side chain resonance assignments of the L-PGDS/PGJ2 complex and the binding site for PGJ2 on L-PGDS.

Complete 1H and 13C NMR chemical shift assignments of mono-to tetrasaccharides as basis for NMR chemical shift predictions of oligo- and polysaccharides using the computer program CASPER

Carbohydrate structure can be elucidated or confirmed by using NMR spectroscopy as the prime technique. Prediction of 1H and 13C NMR chemical shifts by computational approaches makes this assignment process more efficient and the program CASPER can perform this task rapidly. It does so by relying on chemical shift data of mono-, di-, and trisaccharides. In order to improve accuracy and quality of these predictions we have assigned 1H and 13C NMR chemical shifts of 30 monosaccharides, 17 disaccharides, 10 trisaccharides and one tetrasaccharide; in total 58 compounds. Due to different rotamers, ring forms, α- and β-anomeric forms and pD conditions this resulted in 74 1H and 13C NMR chemical shift data sets, all of which were refined using total line-shape analysis for the 1H resonances in order to obtain accurate chemical shifts. Subsequent NMR chemical shift predictions for three sialic acid-containing oligosaccharides, viz., GD1a, a disialyl-LNnT hexasaccharide and a polysialic acid-lactose decasaccharide, and NMR-based structural elucidations of two O-antigen polysaccharides from E. coli O174 were performed by the CASPER program (http://www.casper.organ.su.se/casper/) resulting in very good to excellent agreement between experimental and predicted data thereby demonstrating its utility for carbohydrate compounds that have been chemically or enzymatically synthesized, structurally modified or isolated from nature.

Antibacterial and Antioxidant Activities of Isolated Compounds from Prosopis africana Leaves.

Prosopis africana (G. &Perr.) Taub (Mimosaceae) is a large tree native to dry tropical Africa and characteristic of dry leguminous forests. Different parts of this plant are used to treat wounds, skin infection, and to fight against cancer. Literature review indicated various pharmacological properties. Despite these medicinal properties, the chemical composition studies remain limited. This study aims to isolate and characterize secondary metabolites from P. africana leaves and evaluate their antibacterial and antioxidant properties. Air-dried powdered leaves of P. africana were macerated in methanol at room temperature and partitioned with ethyl acetate. The EtOAc extract was subjected successively to flash and column chromatographies in order to isolate compounds. The structure of the isolates was determined with help of spectroscopic data including 1D and 2D NMR experiments and comparison with literature data. The antibacterial activities were evaluated via determination of minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC). The antioxidant activities were evaluated via gallic acid equivalent antioxidant capacity (GEAC) and diphenyl-1-picrylhydrazyl (DPPH) free radical scavenging assays. The chemical investigation of the EtOAc extract led to the isolation of seven compounds: (2E, 6E) farnesylamine (1), myricetin-3-O-rhamnoside (2), bis(2-ethylhexyl) benzene-1,2-dicarboxylate (3), lupeol (4), ß-sitosterol (5), stigmasterol glycoside (6), and a mixture of bis(2-ethylhexyl) benzene-1,2-dicarboxylate (3) and bis(2-ethylhexyl) benzene-1,4-dicarboxylate (7) in ratio 1 : 2. Compound 1 is described here for the first time as a natural product with complete 1H and 13C assignments. Compounds 3 and 7 were identified as artefacts from dichloromethane. Sesquiterpene amine (1) is reported in Prosopis genus for the first time. Antibacterial and antioxidant activities of isolated compounds were investigated. Among the tested samples, the EtOAc extract and compound 2 exhibited the highest antioxidant (EC50 = 5.67–77.56 μg/mL; GEAC = 36.58–89.28 μg/mL) and antibacterial (MIC = 8–64 μg/mL) activities against gram-negative and gram-positive bacteria. The EtOAc extract and compound 2 from P. africana exhibited antibacterial activity through bacteriolytic effects and reduction of the antioxidant defenses in the bacterial cells. Furthermore, the chemotaxonomic significance of isolated compounds was discussed. The antibacterial and antioxidant activities of ethyl acetate extract and compound 2 can justify the traditional uses of P. africana leaves for the treatment of diseases related to bacterial infections. The presence of compounds 1, 2, and 4 in this plant should also be considered as valuable chemotaxonomic features.