Amide Bond Formation Research Articles

Tertiary amide bond formation by an engineered asparaginyl ligase.

Transpeptidases are powerful tools for site-specific protein modification, enabling the production of tailored biologics to investigate protein function and aiding the development of next-generation therapeutics and diagnostics. Although protein labelling at the N- or C-terminus is readily accomplished using a range of established transpeptidases, these reactions are generally limited to forming products that are linked by a standard (secondary) amide bond. Here we show that, unlike other widely used transpeptidases, an engineered asparaginyl ligase is able to efficiently synthesise tertiary amide bonds by accepting diverse secondary amine nucleophiles. These reactions proceed efficiently under mild conditions (near-neutral pH) and allow the optimal recognition elements for asparaginyl ligases (P1 Asn and P2'' Leu) to be preserved. Certain products, particularly proline-containing products, were found to be protected from recognition by the enzyme, allowing for straightforward sequential labelling of proteins. Additionally, incorporation of 4-azidoproline enables one-pot dual labelling directly at the ligation junction. These capabilities further expand the chemical diversity of asparaginyl ligase-catalysed reactions and provide an alternative approach for straightforward, successive modification of protein substrates.

Creating covalent bonds between Cu and C at the interface of metal/open-ended carbon nanotubes.

The unique electrical properties of carbon nanotubes (CNTs) are highly desired in many technological applications. Unfortunately, in practice, the electrical conductivity of most CNTs and their assemblies has fallen short of expectations. One reason for this poor performance is that electrical resistance develops at the interface between carbon nanomaterials and metal surfaces when traditional metal-metal type contacts are employed. Here, a method for overcoming this resistance using covalent bond formation between open-ended CNTs and Cu surfaces is investigated experimentally and supported by theoretical calculations. The open-ended CNTs are vertically oriented compared to the substrate and have carboxylic functional groups that react with aminophenyl groups (linkers) grafted on metal surfaces. The covalent bond formation, crosslinking carboxylic and amine, via amide bond formation occurs at 120 °C. The covalent bonding nature of the aminophenyl linker is demonstrated theoretically using (100), (110), and (111) Cu surfaces, and bridge-like bond formation between carbon and two adjacent Cu atoms is revealed. The electrical conductivity calculated for a single intramolecular-type junction supports covalent bond formation between Cu and CNTs. Experimentally, the robustness of the covalent bonding between vertically oriented CNTs is tested by exposing CNTs on Cu to sonication, which reveals that CNTs remain fixed to the Cu supports. Since bonding CNTs to metals was performed at low temperatures, the reported method of covalent bond formation is expected to facilitate the application of CNTs in multiple fields, including electronics.

The dipicolylamino group as an efficient leaving group for amide bond formation via hexafluoroisopropyl ester.

Peptide dipicolylamide was prepared by the solid-phase method. The amide was activated by Cu(II) ions in hexafluoroisopropanol and converted to the corresponding active ester. It was condensed with the C-terminal segment to realize segment coupling. The method was successfully applied to the synthesis of an atrial natriuretic peptide and RNase T1.

Reactive deep eutectic solvents for EDC-mediated amide synthesis.

The sustainability of amide bond formation is an ever-present topic in the pharmaceutical industry, as it represents the common motif in many clinically approved drugs. Despite many procedures for accomplishing eco-friendly amide synthesis having been developed, this transformation still remains a contemporary challenge. Herein, we report a greener approach for amide synthesis by using Reactive Deep Eutectic Solvents (RDESs) acting as both the reaction medium and reactants. The procedure not only avoids the use of hazardous solvents but also provides operationally simple product recovery with high purity and efficiency, without chromatographic purification. This approach was efficiently applied to the synthesis of a key intermediate in the production of an active pharmaceutical ingredient like atenolol. The green metrics of the gram-scale procedure were compared to the conventional industrial strategy showing an advancement in the greening of amide synthesis.

Efficient amide bond formation via tropylium ion organocatalysis

An efficient method for amide bond formation is reported using tropylium ion organocatalysis. High yields are achieved under mild conditions with a broad substrate scope. DFT calculations were performed to assess substituent effects on reaction energies, tautomerism, and orbital splitting.

Magnesium-Doped Nano-Hydroxyapatite/Polyvinyl Alcohol/Chitosan Composite Hydrogel: Preparation and Characterization.

Polyvinyl alcohol/Chitosan hydrogel is often employed as a carrier because it is non-toxic, biodegradable, and has a three-dimensional network structure. Meanwhile, Magnesium-doped nano-hydroxyapatite(Mg-nHA) demonstrated high characterization to promote the osteogenic differentiation of bone marrow derived mesenchymal stem cell(BMSCs). Therefore, in order to develop a porous hydrogel scaffold for the application of bone tissue engineering, an appropriate-type Mg-nHA hydrogel scaffold was developed and evaluated. A composite hydrogel containing magnesium-doped nano-hydroxyapatite (Mg-nHA/PVA/CS) was developed using a magnetic stirring-ion exchange method and cyclic freeze-thaw method design, with polyvinyl alcohol and chitosan as the main components. Fourier transform infrared spectra (FTIR), electron energy dispersive spectroscopy (EDS), X-ray photoelectron spectrometer (XPS) and scanning electron microscopy (SEM) were employed to analyze the chemical structure, porosity, and elemental composition of each hydrogels. The equilibrium swelling degree, moisture content, pH change, potential for biomineralization, biocompatibility, the osteogenic potential and magnesium ion release rate of the composite hydrogel were also evaluated. SEM analysis revealed a well-defined 3D spatial structure of micropores in the synthesised hydrogel. FTIR analysis showed that doping nanoparticles had little effect on the hydrogel's structure and both the 5% Mg-nHA/PVA/CS and 10% Mg-nHA/PVA/CS groups promoted amide bond formation. EDS observation indicated that the new material exhibited favourable biomineralization ability, with optimal performance seen in the 5% Mg-nHA/PVA/CS group. The composite hydrogel not only displayed favourable water content, enhanced biocompatibility, and porosity (similar to human cancellous bone), but also maintained an equilibrium swelling degree and released magnesium ions that created an alkaline environment around it. Additionally, it facilitated the proliferation of bone marrow mesenchymal stem cells and their osteogenic differentiation. The Mg-nHA/PVA/CS hydrogel demonstrates significant potential for application in the field of bone repair, making it an excellent composite material for bone tissue engineering.

Deoxyfluorinated amidation and esterification of carboxylic acid by pyridinesulfonyl fluoride.

Amide bond synthesis is one of the most used reactions in medicinal chemistry. We report an amide bond formation reaction through deoxyfluorinated carboxylic acids under mild conditions using 2-pyridinesulfonyl fluoride. The reaction procedure has been used in a one-pot synthesis of amides and esters via in situ generation of acyl fluoride. This one-pot synthetic method provides easy access to amides and esters. Using this method, we have sequentially synthesized a tetrapeptide and calceolarioside-B glycoside derivative with good yields.

AIE‐Switching and Enantioselective Reactivity at Jammed Liquid‐Liquid Interface

AbstractThe jammed liquid‐liquid interface offers an elegant approach to achieve non‐equilibrium shapes of liquids. The interfacial jamming subsequently brings about formation of 2D “solid‐like” assembly. In this work, biphasic reaction between a perylenediimide based luminogen benzoperylenediimide monoanhydride (Bp(Im)2MA) and diamines are demonstrated that rendered amide bond formation and in turn amide nanoconjugates across the oil‐water interface. Amide nanoconjugates formed with different diamines showed diamine alkyl chain length dependent varied interfacial properties and sizes. Jamming of the interface is judiciously utilized to induce aggregation of amide nanoconjugates which successfully established macroscopic Aggregation Induced Emission‐switching (AIE‐switching) behavior. Further, the versatility of this approach is extended to analyze the reactivity of chiral amino acids. The reaction between the Bp(Im)2MA luminogen and chiral amino acids exhibits macroscopic enantioselectivity at jammed interface via diverse surface coverage of the amino acids‐based amide nanoconjugates. The formation of discrete nanoscopic amide interfacial assembly for each of the L‐ and D‐ amino acids isomers is corroborated with Atomic Force Microscopy (AFM) images. This study extends a fascinating pathway to aid in understanding and fabrication of structurally diverse jammed interfaces and aggregation of organic molecules across an oil‐water interface.

The use of microwave radiations and propylphosphonic anhydride (T3P®) for rapid and highly yielding amide bond formation and peptide coupling

An improved, fast, and efficient procedure for amide bond formation and peptide coupling is reported leading to the expected corresponding derivatives in good to excellent isolated yields ranging from 26 to 90%. The outcome of the reaction was also investigated in relation to the influence of different parameters such as the nature of the solvent, the temperature as well as the amine/carboxylic acid couple involved or the hydrolysis conditions.

Selective amide bond formation in redox-active coacervate protocells

Coacervate droplets are promising protocell models because they sequester a wide range of guest molecules and may catalyze their conversion. However, it remains unclear how life’s building blocks, including peptides, could be synthesized from primitive precursor molecules inside such protocells. Here, we develop a redox-active protocell model formed by phase separation of prebiotically relevant ferricyanide (Fe(CN)63−) molecules and cationic peptides. Their assembly into coacervates can be regulated by redox chemistry and the coacervates act as oxidizing hubs for sequestered metabolites, like NAD(P)H and gluthathione. Interestingly, the oxidizing potential of Fe(CN)63− inside coacervates can be harnessed to drive the formation of new amide bonds between prebiotically relevant amino acids and α-amidothioacids. Aminoacylation is enhanced in Fe(CN)63−/peptide coacervates and selective for amino acids that interact less strongly with the coacervates. We finally use Fe(CN)63−-containing coacervates to spatially control assembly of fibrous networks inside and at the surface of coacervate protocells. These results provide an important step towards the prebiotically relevant integration of redox chemistry in primitive cell-like compartments.

Crossing the Solubility Rubicon: 15-Crown-5 Facilitates the Preparation of Water-Soluble Sulfo-NHS Esters in Organic Solvents.

The Sulfo-NHS ester is a mainstay reagent for facilitating amide bond formation between carboxylic acids and amine functionalities in water. However, the preparation of Sulfo-NHS esters currently requires hydrophobic carboxylic acids, which are poorly water-soluble, to first be reacted with the N-hydroxysulfosuccinimide sodium salt, which is insoluble in organic solvents. The mutually incompatible solvation requirements thus complicate the synthesis of Sulfo-NHS esters. As a simple, rapid, and cost-effective solution to this problem, we report that the use of 15-crown-5 to complex the sodium cation of N-hydroxysulfosuccinimide sodium salt circumnavigates these solvation incompatibility issues by rendering the N-hydroxysulfosuccinimide salt soluble in organic solvents, resulting in a cleaner esterification reaction and thus improved yields of activated ester product. We also demonstrate that the resultant "crowned" Sulfo-NHS-ester remains water-soluble and is no less reactive than its classic "uncrowned" Sulfo-NHS counterpart when used in bioconjugation reactions between protein amine-functionalities and hydrophobic carboxylic acids.

Enzymatic Fluoromethylation as a Tool for ATP-Independent Ligation.

S-adenosylmethionine-dependent methyltransferases are involved in countless biological processes, including signal transduction, epigenetics, natural product biosynthesis, and detoxification. Only a handful of carboxylate methyltransferases have evolved to participate in amide bond formation. In this report we show that enzyme-catalyzed F-methylation of carboxylate substrates produces F-methyl esters that readily react with N- or S-nucleophiles under physiological conditions. We demonstrate the applicability of this approach to the synthesis of small amides, hydroxamates, and thioesters, as well as to site-specific protein modification and native chemical ligation.

Enzymatic Fluoromethylation as a Tool for ATP-Independent Ligation.

S-adenosylmethionine-dependent methyltransferases are involved in countless biological processes, including signal transduction, epigenetics, natural product biosynthesis, and detoxification. Only a handful of carboxylate methyltransferases have evolved to participate in amide bond formation. In this report we show that enzyme-catalyzed F-methylation of carboxylate substrates produces F-methyl esters that readily react with N- or S-nucleophiles under physiological conditions. We demonstrate the applicability of this approach to the synthesis of small amides, hydroxamates, and thioesters, as well as to site-specific protein modification and native chemical ligation.

Abating ammonia emission from poultry manure by Pt/TiO2 modified corn straw

Poultry manure is a significant source of ammonia (NH3) emissions, which not only poses detrimental impacts on human well-being and the ecological system, but also leads to economic losses in the agricultural industry. Herein, we modified corn straw (CS) with 1 wt% Pt/TiO2 catalysts using a low-temperature partial-oxidation technology to mitigate NH3 emissions from poultry manure. It was found that Pt/TiO2 can enable exothermic processes to occur at lower temperatures by reducing the activation energy. Under optimal modification conditions of 220 °C, the NH3 uptakes of modified CS samples were markedly greater compared to those of the original CS. Addition of 20–50% modified CS to poultry manure resulted in significant reductions of 54.1–98.6% in NH3 emissions compared to the control. Mechanistic studies indicate that NH3 adsorption on the modified CS is mainly driven by the presence of acidic and alkaline functional groups, while surface area and pore structure have a negligible effect. XPS combined with NH3-TPD reveals that the formation of amide and amine bonds contributes to the excellent stability of adsorbed NH3. H2-TPR, O2-TPD, and d-band theory suggest that strong metal-support interactions between Pt and TiO2 could be particularly crucial in catalyzing CS modification. This study proposes an environmentally sustainable and economically viable solution for abating NH3 emissions from poultry manure, thereby addressing crucial environmental and economic concerns in the agricultural sector.

Contemporary Approaches for Amide Bond Formation

AbstractAmide bond construction has garnered significant interest in recent decades due to amides being one of the most prevalent functional groups among bioactive molecules. Out of the thirty‐seven new drugs approved by the FDA in 2022, eleven are small molecules containing at least one amide bond. Additionally, there are nineteen large molecules approved as new drugs, some of which have peptide structures, and therefore, also bear amide bonds. In recent years, multiple teams have embraced the challenge of developing more efficient methods for amide bond formation. This dedication has led to numerous publications appearing monthly in prestigious journals, showcasing significant advancements in this field. The primary goal of this review is to present the most viable strategies for constructing the amide bond. It is crucial to differentiate between amide bond formation and amide synthesis; hence, the focus is on describing specific methods for forming new C(O)−N bonds. In particular, this review concentrates on the methods developed within the last six years. There is a particular emphasis on new approaches that consider the thought process when selecting the starting materials and functional groups. This approach ensures coverage of all the most common chemical transformations that yield new amide bonds.

Electrochemical performance of bridge molecule-reinforced activated carbon fiber-m-aminobenzenesulfonic acid-polyaniline for braidable-supercapacitor application

The bridge molecule-reinforced activated carbon fiber-m-aminobenzenesulfonic acid-polyaniline (ACF-mABSA-PANI) is designed and fabricated as braidable-supercapacitor electrode to achieve long cycle life and high capacitive performance. The mABSA acts as bridge molecule to form amide bond between mABSA and ACF, as well as sulfonamide bond between mABSA and PANI, which is confirmed by infrared spectrometer and X-ray photoelectron spectroscopy. The interfacial interaction between ACF and PANI is enhanced by chemical bonding, thus alleviating the shedding of polyaniline and improving the cycle life of ACF-mABSA-PANI. The electrostatic potential and Mulliken charge analysis calculations indicate that ACF-mABSA-PANI has an extended delocalized π-π conjugation system. The bridge molecule of mABSA improves the free electron migration efficiency between PANI and ACF, leading to an increase in the specific capacitance of ACF-mABSA-PANI. As a result, ACF-mABSA-PANI presents much higher specific capacitance of 599.3F/g at 0.5 A/g and much higher capacitance retention ratio of 93.8 % after 2000 charge/discharge cycles at 2 A/g while ACF-PANI only keeps 335.0F/g and 54.4 %. Braidable-supercapacitor based on ACF-mABSA-PANI electrode provides an energy density of 39.83 Wh kg−1 at a power density of 900 W kg−1 and maintains a high capacitance retention of 78.1 % after 2000 charge/discharge cycles at 2 A/g. Well-designed ACF-mABSA-PANI presents the potential and promising application for wearable electrochemical energy storage devices.

Exploring the versatility of the amidation of aryl acid fluorides using the germylamines R3GeNMe2.

The formation of amide bonds is an important process since this linkage is an essential component in proteins, pharmaceuticals, and other medicinally and biologically significant molecules. Recently, it was demonstrated that germylamines R3GeNR'2 were useful reagents for the conversion of acid fluorides to amides. This transformation occurs readily at room temperature and has a low activation energy. In the present study, the versatility of this amidation reaction with aryl acid fluorides is investigated. A series of thirteen acid fluorides with various substituents on the aromatic ring were reacted with the germylamine Ph3GeNMe2 and twelve of these were converted to the corresponding amides in high yields, the exception being 1,4-benzenedicarbonyl difluoride. The germylamines Bun3GeNMe2 and Pri3GeNMe2 also could be used for this interconversion, and both of these species successfully converted 1,4-benzenedicarbonyl difluoride to the corresponding amide. In addition, the crystal structure of Ph3GeNMe2 is reported. This represents one of only three crystallographically characterized germylamines. The synthesis and 19F NMR characterization of three fluorogermanes R3GeF (R = Bun, Pri, and Mes) are also reported herein.

Amide Bond Formation Using Triflylpyridinium as Coupling Reagent

Amide Bond Formation Using Triflylpyridinium as Coupling Reagent

Ultrafast self-gelling, sprayable, and adhesive carboxymethyl chitosan/poly-γ-glutamic acid/oxidized dextran powder for effective gastric perforation hemostasis and wound healing

The rapid and effective hemostasis of gastrointestinal bleeding sites remains an urgent clinical challenge. In this study, an ultrafast self-gelling, sprayable, and adhesive carboxymethyl chitosan/poly-γ-glutamic acid/oxidized dextran (CPO) powder was designed for gastric perforation hemostasis and healing. When the CPO powder was sprayed to the gastric perforation site, the CPO powder absorbed water from the blood and concentrate blood cells and clotting factors to achieve the purpose of rapid hemostasis. During the hemostasis, the CPO powder formed a hydrogel in situ through the formation of amide bonds and Schiff base bonds within 15 s, forming a physical barrier to cover the wound surface. Concurrently, the aldehyde group (-CHO) of oxidized dextran formed additional Schiff base bonds with the amino group (−NH2) of the tissue, enabling the CPO powder with wound surface adhesion. Moreover, the CPO powder was shown to have excellent in vitro and in vivo antibacterial properties and it was able to promote the healing of infected wounds in a mouse model. In summary, CPO powder provides a promising idea for the rational design of gastrointestinal hemostatic agents.

Ocular antibacterial chitosan-maleic acid hydrogels: In vitro and in vivo studies for a promising approach with enhanced mucoadhesion

The aim was to design and evaluate a chitosan-based conjugate providing high mucoadhesiveness and antibacterial activity for ocular infections treatment. Chitosan was conjugated with maleic acid via amide bond formation and infrared spectroscopy. Furthermore, 2,4,6-Trinitrobenzene sulfonic acid (TNBS) allowed characterization and quantification of conjugated groups, respectively. Biocompatibility was tested via hemolysis assay and Hen's Egg-Chorioallantoic membrane test. Characterization of the pH and osmolarity of hydrogels was followed by mucoadhesion assessment utilizing rheology. In addition, antibacterial studies were carried out towards Escherichia coli by broth microdilution test and agar-disk diffusion assay. In vivo studies were carried out following the already established Draize test and determining pharmacokinetic profile of dexamethasone in aqueous humour. The conjugate exhibited a degree of modification of 50.05 % and no toxicity or irritability. Moreover, mucoadhesive properties were enhanced in 2.68-fold and 1.81-fold for elastic and viscous modulus, respectively. Furthermore, rheological synergism revealed the presence of a gel-like structure. Additionally, broth microdilution and agar disk diffusion studies exhibited enhancement in antibacterial activity. Finally, in vivo studies manifested that hydrogels were highly tolerated, evidencing promising characteristics of the developed conjugate. The conjugate presented promising antimicrobial, long lasting mucoadhesive features and highly improved pharmacokinetics, leading to a revolutionizing approach in the treatment of ocular bacterial infections.