Epimerization Reaction Research Articles

Concise Synthesis of Norzoanthamine Enabled by a Set of Photochemical Transformations.

Norzoanthamine is a structurally complex polycyclic natural product that expresses a broad range of biological activities, rendering facile access to it and its analogs of considerable importance in drug discovery and development. However, strategies for efficient access to this class of marine alkaloids remain lacking. Here, we report a strategy, characterized by three key photochemical reactions, that we used to synthesize norzoanthamine in 16 steps. A photoinduced dearomative-6π-desymmetrization was developed for facile access to the ABC-tricyclic core of the alkaloid. This was supplemented by a [2 + 2]-photocycloaddition, a visible-light-induced decarboxylative borylation, and a retro-aldol process, constituting an effective solution to the challenging problem of establishing the C9-C22 vicinal all-carbon quaternary stereogenic centers. Finally, a one-pot cascade transformation, involving global deprotection, cyclization, and epimerization reaction, was designed for efficient and stereocontrolled assembly of the core framework of norzoanthamine.

Microbial synthesis of sedoheptulose from glucose by metabolically engineered Corynebacterium glutamicum

BackgroundSeven-carbon sugars, which rarely exist in nature, are the key constitutional unit of septacidin and hygromycin B in bacteria. These sugars exhibit a potential therapeutic effect for hypoglycaemia and cancer and serve as building blocks for the synthesis of C-glycosides and novel antibiotics. However, chemical and enzymatic approaches for the synthesis of seven-carbon sugars have faced challenges, such as complex reaction steps, low overall yields and high-cost feedstock, limiting their industrial-scale production.ResultsIn this work, we propose a strain engineering approach for synthesising sedoheptulose using glucose as sole feedstock. The gene pfkA encoding 6-phosphofructokinase in Corynebacterium glutamicum was inactivated to direct the carbon flux towards the pentose phosphate pathway in the cellular metabolic network. This genetic modification successfully enabled the synthesis of sedoheptulose from glucose. Additionally, we identified key enzymes responsible for product formation through transcriptome analysis, and their corresponding genes were overexpressed, resulting in a further 20% increase in sedoheptulose production.ConclusionWe achieved a sedoheptulose concentration of 24 g/L with a yield of 0.4 g/g glucose in a 1 L fermenter, marking the highest value up to date. The produced sedoheptulose could further function as feedstock for synthesising structural seven-carbon sugars through coupling with enzymatic isomerisation, epimerisation and reduction reactions.

Stereoselective Ring-opening Polymerization of S-Carboxyanhydrides Using Salen Aluminum Catalysts: A Route to High-Isotactic Functionalized Polythioesters.

Polythioesters are important sustainable polymers with broad applications. The ring-opening polymerization (ROP) of S-Carboxyanhydrides (SCAs) can afford polythioesters with functional groups that are typically difficult to prepare by ROP of thiolactones. Typical methods involving organocatalysts, like dimethylaminopyridine (DMAP) and triethylamine (Et3 N), have been plagued by uncontrolled polymerization, including epimerization for most SCAs resulting in the loss of isotacticity. Here, we report the use of salen aluminum catalysts for the selective ROP of various SCAs without epimerization, affording functionalized polythioester with high molecular weight up to 37.6 kDa and the highest Pm value up to 0.99. Notably, the ROP of TlaSCA (SCA prepared from thiolactic acid) generates the first example of a isotactic crystalline poly(thiolactic acid), which exhibited a distinct Tm value of 152.6 °C. Effective ligand tailoring governs the binding affinity between the sulfide chain-end and the metal center, thereby maintaining the activity of organometallic catalysts and reducing the occurrence of epimerization reactions.

Stereoselective Ring‐opening Polymerization of S‐Carboxyanhydrides Using Salen Aluminum Catalysts: A Route to High‐Isotactic Functionalized Polythioesters

AbstractPolythioesters are important sustainable polymers with broad applications. The ring‐opening polymerization (ROP) of S‐Carboxyanhydrides (SCAs) can afford polythioesters with functional groups that are typically difficult to prepare by ROP of thiolactones. Typical methods involving organocatalysts, like dimethylaminopyridine (DMAP) and triethylamine (Et3N), have been plagued by uncontrolled polymerization, including epimerization for most SCAs resulting in the loss of isotacticity. Here, we report the use of salen aluminum catalysts for the selective ROP of various SCAs without epimerization, affording functionalized polythioester with high molecular weight up to 37.6 kDa and the highest Pm value up to 0.99. Notably, the ROP of TlaSCA (SCA prepared from thiolactic acid) generates the first example of a isotactic crystalline poly(thiolactic acid), which exhibited a distinct Tm value of 152.6 °C. Effective ligand tailoring governs the binding affinity between the sulfide chain‐end and the metal center, thereby maintaining the activity of organometallic catalysts and reducing the occurrence of epimerization reactions.

Tailoring parameters for QM/MM simulations: accurate modeling of adsorption and catalysis in zirconium-based metal-organic frameworks.

Quantum mechanics/molecular mechanics (QM/MM) simulations offer an efficient way to model reactions occurring in complex environments. This study introduces a specialized set of charge and Lennard-Jones parameters tailored for electrostatically embedded QM/MM calculations, aiming to accurately model both adsorption processes and catalytic reactions in zirconium-based metal-organic frameworks (Zr-MOFs). To validate our approach, we compare adsorption energies derived from QM/MM simulations against experimental results and Monte Carlo simulation outcomes. The developed parameters showcase the ability of QM/MM simulations to represent long-range electrostatic and van der Waals interactions faithfully. This capability is evidenced by the prediction of adsorption energies with a low root mean square error of 1.1 kcal mol-1 across a wide range of adsorbates. The practical applicability of our QM/MM model is further illustrated through the study of glucose isomerization and epimerization reactions catalyzed by two structurally distinct Zr-MOF catalysts, UiO-66 and MOF-808. Our QM/MM calculations closely align with experimental activation energies. Importantly, the parameter set introduced here is compatible with the widely used universal force field (UFF). Moreover, we thoroughly explore how the size of the cluster model and the choice of density functional theory (DFT) methodologies influence the simulation outcomes. This work provides an accurate and computationally efficient framework for modeling complex catalytic reactions within Zr-MOFs, contributing valuable insights into their mechanistic behaviors and facilitating further advancements in this dynamic area of research.

Stratigraphic distributions of biomarkers and carbon isotopes in coals constrain the Permo-Carboniferous climatic changes and floral turnovers in the north China block

The intricate relationship between climate and vegetation dynamics, particularly during the late Paleozoic ice age marked by multiple icehouse-greenhouse transitions, is a compelling aspect in Earth's historical narrative. In this study, we decipher the interactions between the Permo-Carboniferous climate fluctuations and floral turnovers within the North China Craton, based on the stratigraphic distributions of biomarkers and carbon isotopes from cored coals in Huainan coalfield, North China. Our findings reveal that the changes in n-alkane, terpane, sterane, and polycyclic aromatic hydrocarbon (PAH) distributions result from a confluence of maturation, depositional environment, and organofacies effects. Molecular maturity-sensitive ratios align with the maturity stage determined by Rock-Eval pyrolysis and petrography, categorizing the coals as high volatile bituminous A/B with a composite organic matter derived from terrestrial plants and marine algae. Notably, the 18α-22,29,30-trisnorneohopane (Ts) to 17α-trisnorhopane ratio (Ts/(Ts + Tm)), as well as C31–C34 22S/(22S + 22R) hopanes and C29 20S/(20S + 20R) steranes ratios exhibit moderate correlations with %Ro, indicative of epimerization reactions induced by maturation processes. The stratigraphic variations in pristane to phytane ratios (Pr/Ph), Pr/n-C17, Ph/n-C18, C30 αβ/(αβ+βα) hopanes, and organofacies sensitive PAH indices collectively capture a paleoenvironmental shift from reducing to oxic conditions attributed to marine regression. The systematic changes in PAH concentrations and their maturity indices reflect condensation and dealkylation reactions during the maturation process. The δ13C signature manifests a negative excursion in coals of the Artinskian Shanxi Formation and a subsequent positive excursion in the Capitanian Upper Shihezi Formation coals, respectively, reflecting changes in the δ13C values of contemporaneous atmospheric CO2 in response to regional aridity fluctuations.

Discovery of a novel tetrahydroimidazo[1,2-a]pyridine-5-carboxylic acid derivative as a potent and selective heparanase-1 inhibitor utilizing an improved synthetic approach

Heparanase-1 (HPSE1) is an endo-β-d-glucuronidase that catalyzes degradation of heparan sulfate proteoglycans. Inhibition of HPSE1 appears to be a useful therapeutic target against cancer and proteinuric kidney diseases. We previously reported tetrahydroimidazo[1,2-a]pyridine 2 as a potent HPSE1 inhibitor after optimization of the synthetic reaction. However, synthesis of 2 involves a total of 19 steps, including a cyclization process that accompanies a strong odor due to the use of Lawesson’s reagent and an epimerization reaction; furthermore, 2 exhibited insufficient selectivity for HPSE1 over exo-β-d-glucuronidase (GUSβ) and glucocerebrosidase (GBA), which also needed to be addressed. First, the cyclization reaction was optimized to synthesize tetrahydroimidazo[1,2-a]pyridine without using Lawesson’s reagent or epimerization, with reference to previous reports. Next, 16 and 17 containing a bulkier substituent at position 6 than the 6-methoxyl group in 2 were designed and synthesized using the improved cyclization conditions, so that the synthetic route of 16 and 17 was shortened by five steps as compared with that of 2. The inhibitory activities of 16 and 17 against GUSβ and GBA were reduced as compared with those of 2, that is, the compounds showed improved selectivity for HPSE1 over GUSβ and GBA. In addition, 16 showed enhanced inhibitory activity against HPSE1 as compared with that of 2. Compound 16 appears promising as an HPSE1 inhibitor with therapeutic potential due to its highly potent inhibitory activity against HPSE1 with high selectivity for HPSE1.

Heterogeneous Transformation of Ginsenoside Rb1 with Ethanol Using Heteropolyacid-Loaded Mesoporous Silica and Identification by HPLC-MS.

Rare ginsenosides with major pharmacological effects are barely present in natural ginseng and are required to be obtained by transformation. In the current study, ginsenoside Rb1 was chemically transformed with the involvement of ethanol molecules to prepare rare ginsenosides using the synthesized heterogeneous catalyst 12-HPW@MeSi. A total of 16 transformation products were obtained and identified using high-performance liquid chromatography coupled with multistage tandem mass spectrometry and high-resolution mass spectrometry. Ethanol molecules were involved in the production of 6 transformation products by adding to the C-20(21), C-20(22), or C-24(25) double bonds on the aglycone to produce ethoxyl groups at the C-25 and C-20 positions. Transformation pathways of ginsenoside Rb1 are summarized, which involve deglycosylation, elimination, cycloaddition, epimerization, and addition reactions. In addition, 12-HPW@MeSi was recyclable through a simple centrifugation, maintaining an 85.1% conversion rate of Rb1 after 3 cycles. This work opens up an efficient and recycled process for the preparation of rare ginsenosides with the involvement of organic molecules.

Peptide epimerase-dehydratase complex responsible for biosynthesis of the linaridin class ribosomal peptides.

Grisemycin, salinipeptin, and cypemycin belong to the linaridin class of ribosomally synthesized and posttranslationally modified peptides that contain multiple dehydrobutyrine and D-amino acid residues. The biosynthetic gene clusters of these linaridins lack obvious candidate genes for the dehydratase and epimerase required to introduce dehydrobutyrine and D-amino acid residues, respectively. However, we previously demonstrated that the grisemycin (grm) cluster contained cryptic dehydratase and epimerase genes by heterologous expression of this biosynthetic gene cluster in Streptomyces lividans and proposed that two genes (grmH and grmL) with unknown functions catalyze dehydration and epimerization reactions. In this study, we confirmed that both GrmH and GrmL, which were shown to constitute a protein complex by a co-purification experiment, were required to catalyze the dehydration, epimerization, and proteolytic cleavage of a precursor peptide GrmA by in vivo experiments. Furthermore, we demonstrated that GrmH/GrmL complex accepted salinipeptin and cypemycin precursor peptides, which possess three additional amino acids.

Structural and Functional Features of Ketoso-3-Epimerases and Their Use in Production of D-Allulose

Rare sugars attract more and more attention as safe, low-calorie sweeteners and functional compounds in the food, pharmaceutical and medical industries. The potential of the rare sugar D-allulose has been proven in a large number of theoretical and applied works but the high cost of its production is a limitation factor for its large-scall production. Epimerization reactions of available sugars leading to the production of D-allulose are catalyzed by enzymes consisting the epimerase group, namely, ketose-3-epimerases. The key goals of ongoing studies on the ketose-3-epimerase family enzymes are focused on the exact mechanisms of their work, improvement of the enzymatic activity and stability in order to achieve high efficiency in the production of D‑allulose. The present review summarizes the latest innovative developments in use of ketose-3-epimerases, as well as optimization of the enzymatic processes of D-allulose production. The structural features of the main enzymes used in the production of this rare sugar, variants of molecular modifications of biocatalysts and prospects for the practical use of the enzyme pathways discussed in this work are considered.

Performance‐Advantaged Stereoregular Recyclable Plastics Enabled by Aluminum‐Catalytic Ring‐Opening Polymerization of Dithiolactone

AbstractChemically recyclable polymers that can depolymerize into their constituent monomers are attractive candidates to replace non‐recyclable petroleum‐derived plastics. However, the physical properties and mechanical strengths of depolymerizable polymers are commonly insufficient for practical applications. Here we demonstrate that by proper ligand design and modification, aluminum complexes can catalyse stereoretentive ring‐opening polymerization of dithiolactone, yielding highly isotactic polythioesters with molar masses up to 45.5 kDa. This material can form crystalline stereocomplex with a Tm of 94.5 °C, and exhibits mechanical performances comparable to petroleum‐based low density polyethylene. Exposure of the polythioester to aluminum precatalyst used to synthesized it resulted in depolymerization to pristine chiral dithiolactone. Experimental and computational studies suggest that aluminum complexes have appropriate binding affinity with sulfide propagating species, thereby avoiding catalyst poisoning and minimizing epimerization reactions, which has not been accessible using other metal catalysts. Overall, aluminum catalysis provides access to performance‐advantaged stereoregular recyclable plastics as a promising alternative to petrochemical plastics, thus incentivizing improved plastic sustainability.

Performance-advantaged Stereoregular Recyclable Plastics Enabled by Aluminum-catalytic Ring-opening Polymerization of Dithiolactone.

Chemically recyclable polymers that can depolymerize into their constituent monomers are attractive candidates to replace non-recyclable petroleum-derived plastics. However, the physical properties and mechanical strengths of depolymerizable polymers are commonly insufficient for practical applications. Here we demonstrate that by proper ligand design and modification, aluminum complexes can catalyse stereoretentive ring-opening polymerization of dithiolactone, yielding highly isotactic polythioesters with molar masses up to 45.5 kDa. This material can form crystalline stereocomplex with a Tm of 94.5 °C, and exhibits mechanical performances comparable to petroleum-based low density polyethylene. Exposure of the polythioester to aluminum precatalyst used to synthesized it resulted in depolymerization to pristine chiral dithiolactone. Experimental and computational studies suggest that aluminum complexes have appropriate binding affinity with sulfide propagating species, thereby avoiding catalyst poisoning and minimizing epimerization reactions, which has not been accessible using other metal catalysts. Overall, aluminum catalysis provides access to performance-advantaged stereoregular recyclable plastics as a promising alternative to petrochemical plastics, thus incentivizing improved plastic sustainability.

Flipping the Switch on Palladium-Catalyzed Carboiodination: Accessing Kinetic and Thermodynamic Products

A palladium-catalyzed epimerization reaction of stereogenic alkyl iodides is reported. This transformation involves use of an air-stable precatalyst that efficiently epimerizes the C–I bond from the exo to the endo face of [2.2.1] bicyclic compounds. Mechanistic experiments support the stereoinversion of the C–I bond via reversible bond formation to generate the antiproduct bearing an endo iodide. Density functional theory studies were conducted to support a thermodynamically driven epimerization. Stoichiometric experiments suggested that irradiation of isolable alkyl–Pd(II) complexes promoted the C–I reductive elimination, which could even be applied to C–Br bond formation.

Total Synthesis of 4α-Hydroxyallosecurinine and Securingine F, Securinega Alkaloids with a C4-Hydroxy Handle for Biofunctional Derivatizations

AbstractWe describe the first total synthesis of the C4-hydroxylated securinega alkaloids 4α-hydroxyallosecurinine and securingine F. The synthetic route features an Ellman’s light-mediated hydrogen-atom-transfer-based epimerization reaction that effectively sets the desired configuration at the C2 position. Simultaneous skeletal rearrangement from neosecurinane to securinane frameworks and stereochemical reversal at the C4 site was achieved under Mitsunobu reaction conditions. The C4-hydroxy group is envisioned to serve as a handle for potential biofunctional derivatizations.

Dendrillic Acids A and B: Nitrogenous, Rearranged Spongian Nor-Diterpenes from a Dendrilla sp. Marine Sponge.

Two nitrogenous rearranged spongian nor-diterpenoids, dendrillic acids A and B, were isolated from a marine sponge Dendrilla sp. (order: Dendroceratida; family: Darwinellidae). The structures of the metabolites were elucidated on the basis of spectroscopic analysis as well as density functional theory prediction of NMR chemical shifts and application of the DP4+ algorithm. The absolute configuration of the metabolites was established via comparison of experimental and time-dependent density functional theory predicted electronic circular dichroism data. An unusual epimerization reaction was observed leading to the interconversion of the metabolites upon storage in dimethyl sulfoxide solution, which is proposed to proceed via an anionic pathway as probed via isotopic incorporation experiments. Evaluation against a panel of micro-organisms and cell lines revealed that the compounds were devoid of any significant biological activity against all organisms tested, with the exception of mild antiprotozoal activity displayed by dendrillic acid B (2) against Giardia duodenalis.

Enantiopurification of Mandelic Acid by Crystallization-Induced Diastereomer Transformation: An Experimental and Computational Study

Chiral purification is crucial in the pharmaceutical industry due to the dramatic differences in biological activity of the two enantiomers of most chiral drugs. In this work, we demonstrate a new enantiopurification route for an important drug precursor, mandelic acid, by forming a diastereomeric amide with enantiopure 1-phenylethylamine. We show that in the presence of a strong base, the resulting diastereomeric system not only undergoes a reversible epimerization reaction but also exhibits a surprising difference in crystallization behavior, i.e., at room temperature, one epimer forms a metastable gel phase, only converting to a more stable crystal over several days, while the other forms a stable crystalline phase. Exploiting these properties, a facile purification technique via crystallization-induced diastereomer transformation (CIDT) was achieved enabling good product yield (>70%) and excellent optical purity (>92%). Enantiopure mandelic acid (∼91% e.e.) can then be recovered via acid hydrolysis. This work highlights that for compounds that are neither conveniently racemizable nor conglomerate-forming such as mandelic acid, CIDT is a powerful alternative to the deracemization technique, capable of yields greater than the 50% in contrast to traditional resolution techniques.

Insights into the biosynthesis of septacidin l-heptosamine moiety unveils a VOC family sugar epimerase.

l-Heptopyranoses are important components of bacterial polysaccharides and biological active secondary metabolites like septacidin (SEP), which represents a group of nucleoside antibiotics with antitumor, antifungal, and pain-relief activities. However, little is known about the formation mechanisms of those l-heptose moieties. In this study, we deciphered the biosynthetic pathway of the l,l-gluco-heptosamine moiety in SEPs by functional characterizing four genes and proposed that SepI initiates the process by oxidizing the 4'-hydroxyl of l-glycero-α-d-manno-heptose moiety of SEP-328 (2) to a keto group. Subsequently, SepJ (C5 epimerase) and SepA (C3 epimerase) shape the 4'-keto-l-heptopyranose moiety by sequential epimerization reactions. At the last step, an aminotransferase SepG installs the 4'-amino group of the l,l-gluco-heptosamine moiety to generate SEP-327 (3). An interesting phenomenon is that the SEP intermediates with 4'-keto-l-heptopyranose moieties exist as special bicyclic sugars with hemiacetal-hemiketal structures. Notably, l-pyranose is usually converted from d-pyranose by bifunctional C3/C5 epimerase. SepA is an unprecedented monofunctional l-pyranose C3 epimerase. Further in silico and experimental studies revealed that it represents an overlooked metal dependent-sugar epimerase family bearing vicinal oxygen chelate (VOC) architecture.

Analysis of enzyme reactions using NMR techniques: A case study with α-methylacyl-CoA racemase (AMACR).

α-Methylacyl-CoA racemase (AMACR; P504S) catalyzes the conversion of R-2-methylacyl-CoA esters into their corresponding S-2-methylacyl-CoA epimers enabling their degradation by β-oxidation. The enzyme also catalyzes the key epimerization reaction in the pharmacological activation pathway of ibuprofen and related drugs. AMACR protein levels and enzymatic activity are increased in prostate cancer, and the enzyme is a recognized drug target. Key to the development of novel treatments based on AMACR inhibition is the development of functional assays. Synthesis of substrates and purification of recombinant human AMACR are described. Incubation of R- or S-2-methylacyl-CoA esters with AMACR in vitro resulted in formation of epimers (at a near 1-1 ratio at equilibrium) via removal of their α-protons to form an enolate intermediate followed by reprotonation. Conversion can be conveniently followed by incubation in buffer containing 2H2O followed by 1H NMR analysis to monitor conversion of the α-methyl doublet to a single peak upon deuterium incorporation. Incubation of 2-methylacyl-CoA esters containing leaving groups results in an elimination reaction, which was also characterized by 1H NMR. The synthesis of substrates, including a double labeled substrate for mechanistic studies, and subsequent analysis is also described.

Molybdenum sulfide-2D nanosheets offering multiple metallic sites enable different sugar epimerization reactions to rare sugars in water

Molybdenum sulfide as 2D-nanosheets exhibits versatility in transforming high-calorie sugars into low-calorie sugars in water. The flexible active sites, such as Mo and S, swap their role depending on the sugar's structural configuration.

Synthetic investigations in epimerization reactions of β-lactams

A novel and facile synthesis of cis-3-phenylthio & cis-3-chloro-β-lactams using epimerization reaction has been studied. The optimized reaction conditions for this conversion using very mild base have been studied. All the new synthesized compounds have been characterized. The reported work gives easy conversion of trans isomers to cis without forming any side product.