Class Of Motifs Research Articles

Augmenting flexibility: mutual inhibition between inhibitory neurons expands functional diversity.

Recent advances in microcircuit analysis of nervous systems have revealed a plethora of mutual connections between inhibitory interneurons across many different species and brain regions. The abundance of these mutual connections has not been fully explained. Strikingly, we show that neural circuits with mutually inhibitory connections are able to rapidly and flexibly switch between distinct functions. That is, multiple functions coexist for a single set of synaptic weights. Here, we develop a theoretical framework to explain how inhibitory recurrent circuits give rise to this flexibility and show that mutual inhibition doubles the number of cusp bifurcations in small neural circuits. As a concrete example, we study a class of functional motifs we call coupled recurrent inhibitory and recurrent excitatory loops (CRIRELs). These CRIRELs have the advantage of being both multi-functional and controllable, performing a plethora of functions, including decisions, memory, toggle, and so forth. Finally, we demonstrate how mutual inhibition maximizes storage capacity for larger networks.

Catalytic Synthesis of Fluoroalkyl Ketones

AbstractFluoroalkyl ketones are a class of structural motifs which are ubiquitous in bioactive molecules, and serve as synthons for diverse value‐added fluorine‐containing targets. The presence of fluorine significantly alters the lipophilicity and bioactivity of alkyl ketones as well as imposes additional challenges on the synthesis of fluoroalkyl ketones. Traditional methods for the synthesis of fluoroalkyl ketones heavily rely on multiple‐step manipulations which require stoichiometric reagents and suffer from low efficiency. Thus, the development of synthesizing fluoroalkyl ketones enabled by catalytic methods is highly valuable yet challenging. This Concept summarizes the recent renaissance in developing catalytic methods for the synthesis of fluoroalkyl ketones with diverse substitution patterns from different fluorine‐containing precursors. In addition, further efforts for catalytic method development are also discussed.

Gold-catalysed amine synthesis by reductive hydroamination of alkynes with nitroarenes.

Amines are the most pivotal class of organic motifs in pharmaceutical compounds. Here we provide a blueprint for a general synthesis of amines by catalyst differentiation enabled by triple Au-H/Au+/Au-H relay catalysis. The parent catalyst is differentiated into a set of catalytically active species to enable triple cascade catalysis, where each catalytic species is specifically tuned for one catalytic cycle. This strategy enables the synthesis of biorelevant amine motifs by reductive hydroamination of alkynes with nitroarenes. Using this triple cascade approach, we have achieved exceptional functional group tolerance, enabling the use of bulk chemical feedstocks as coupling partners for the amination of both simple and complex alkynes (>100 examples), including those derived from pharmaceuticals, peptides and natural products (>30 examples). The isolation and full crystallographic characterization of gold hydride and hydride-bridged gold complexes has garnered insights into the catalyst differentiation process of fundamental organometallic gold hydride complexes.

Foldamer-Based Mechanoresponsive Materials: Molecular Nanoarchitectonics to Advanced Functions.

Artificial molecules that respond to external stimuli such as light, heat, chemical signals, and mechanical force have garnered significant interest due to their tunable functions, variable optical properties, and mechanical responses. Particularly, mechanoresponsive materials featuring molecules that respond to mechanical stress or show force-induced optical changes have been intriguing due to their extraordinary functions. Despite the promising potential of many such materials reported in the past, practical applications have remained limited, primarily because their functions often depend on irreversible covalent bond rupture. Foldamers, oligomers that fold into well-defined secondary structures, offer an alternative class of mechanoactive motifs. These molecules can reversibly sustain mechanical stress and efficiently dissipate energy by transitioning between folded and unfolded states. This review focuses on the emerging properties of foldamer-based mechanoresponsive materials. We begin by highlighting the mechanical responses of foldamers in their molecular form, which have been primarily investigated using single-molecule force spectroscopy and other analytical methods. Following this, we provide a detailed survey of the current trends in foldamer-appended polymers, emphasizing their emerging mechanical and mechanochromic properties. Subsequently, we present an overview of the state-of-the-art advancements in foldamer-appended polymers, showcasing significant reports in this field. This review covers some of the most recent advances in this direction and draws a perspective for further development.

Enantiodivergent kinetic resolution of 4-substituted 1,2,3,4-tetrahydroquinolines employing amine oxidase

Optically pure 1,2,3,4-tetrahydroquinolines (THQs) represent a class of important motifs in many natural products and pharmaceutical agents. While recent advances on redox biocatalysis have demonstrated the great potential of amine oxidases, all the transformations focused on 2-substituted THQs. The corresponding biocatalytic method for the preparation of chiral 4-substituted THQs is still challenging due to the poor activity and stereoselectivity of the available enzyme. Herein, we developed a biocatalytic kinetic resolution approach for enantiodivergent synthesis of 4-phenyl- or alkyl-substituted THQs. Through structure-guided protein engineering of cyclohexylamine oxidase derived from Brevibacterium oxidans IH-35 A (CHAO), the variant of CHAO (Y215H/Y214S) displayed improved specific activity toward model substrate 4-phenyl substituted THQ (0.14 U/mg, 13-fold higher than wild-type CHAO) with superior (R)-stereoselectivity (E > 200). Molecular dynamics simulations show that CHAO Y215H/Y214S allows a suitable substrate positioning in the expanded binding pocket to be facilely accessed, enabling enhanced activity and stereoselectivity. Furthermore, a series of 4-alkyl-substituted THQs can be transformed by CHAO Y215H/Y214S, affording R-isomers with good yields (up to 50 %) and excellent enantioselectivity (up to ee > 99 %). Interestingly, the monoamine oxidase from Pseudomonas fluorescens Pf0–1 (PfMAO1) with opposite enantioselectivity was also mined. Together, this system enriches the kinetic resolution methods for the synthesis of chiral THQs.

Recent Advancements and Developments in the Biological Importance of 1,3,5‐Triazines

AbstractNitrogen‐bearing heterocycles are ubiquitous in landscapes and have a great impact on living nature. Structural motifs are present in diverse natural products like vitamins, antibiotics, and alkaloids, as well as pharmaceuticals. The 1,3,5‐Triazines are the primitive class of heterocyclic motifs and are used in various synthetic and medicinal applications. This review covers an exhaustive exploration of literature reports and describes various synthetic strategies and pharmacological activities of 1,3,5‐triazine moiety. Synthetic strategies include multicomponent reaction, metal catalyst reaction, microwave‐assisted strategy, etc. to construct 1,3,5‐triazine moiety. Pharmacological activities include anticancer, antimalarial, antibacterial, antifungal, antiviral, anti‐tubercular, anti‐leishmanial, anti‐inflammatory, histamine antagonist, serotonin antagonist, etc. For anticancer activity, 1,3,5‐triazine moiety‐containing compounds were tested on different cell lines, and inhibitory activity was also mentioned. The involvement of this scaffold in the treatment of various diseases and disorders makes this scaffold important from a research perspective. Therefore, there is a need to present the combined data of research and reviews to the researchers to develop new molecules. For that reason, the review included information from articles published from 1978 onwards.

Regioselective Olefination and Arylation of Arene-Tethered Diols Using the Easily Foldable Directing Groups.

Arene-tethered diols constitute a valuable class of structural motifs of drug and bioactive natural product molecules. In this study, a regioselective protocol for olefination and arylation of arene-tethered 1,2-diols and 1,3-diols has been developed using easily foldable acetal structures for attaching pyridine and nitrile directing groups. The method overcomes the steric hindrance effect of the short-chain diols and affords products in high yield and regioselectivity. This efficient cascaded catalysis has been successfully utilized in the syntheses of natural products such as peucedanol, decursinol, and marmesin.

Manganese Complex Catalyzed Sequential Multi-component Reaction: Enroute to a Quinoline-Derived Azafluorenes.

The development of innovative synthetic strategies for constructing complex molecular structures is the heart of organic chemistry. This significance of novel reactions or reaction sequences would further enhance if they permitted the synthesis of new classes of structural motifs, which have not been previously created. The research on the synthesis of heterocyclic compounds is one of the most active topics in organic chemistry due to the widespread application of N-heterocycles in life and material science. The development of a new catalytic process that employs first-row transition metals to produce a range of heterocycles from renewable raw materials is considered highly sustainable approach. This would be more advantageous if done in an eco-friendly and atom-efficient manner. Herein we introduce, the synthesis of various new quinoline based azafluorenes via sequential dehydrogenative multicomponent reaction (MCR) followed by C(sp3)-H hydroxylation and annulation. Our newly developed, Mn-complexes have the ability to direct the reaction in order to achieve a high amount of desired functionalized heterocycles while minimizing the possibility of multiple side reactions. We also performed a series of control experiments, hydride trapping experiments, reaction kinetics, catalytic intermediate and DFT studies to comprehend the detailed reaction route and the catalyst's function in the MCR sequence.

Analiza simetrije u šarama makedonske nošnje

Ornaments are a particularly important aspect in textile design, influencing the visual and aesthetic value of textile products. They are part of every culture in the world. Decorative ornaments applied in Macedonian costumes and textiles combine the tradition and techniques of manufacturing and decoration, which have been developed and passed down from generation to generation. This work investigates the ornaments in Macedonian folk costumes and textiles from the aspect of applied symmetrical operations. A number of traditional textiles with different classes of motifs, borders and two-dimensional patterns were analysed. In the era of globalizations of textile trends and designs, ornaments remain an important aspect offering creativity and innovation in design. They are a fundamental part of the textile industry continually developing onto new means of expression and functionality.

MRNA display reveals a class of high-affinity bromodomain-binding motifs that are not found in the human proteome

Bromodomains (BDs) regulate gene expression by recognizing protein motifs containing acetyllysine. Although originally characterized as histone-binding proteins, it has since become clear that these domains interact with other acetylated proteins, perhaps most prominently transcription factors. The likely transient nature and low stoichiometry of such modifications, however, has made it challenging to fully define the interactome of any given BD. To begin to address this knowledge gap in an unbiased manner, we carried out mRNA display screens against a BD-the N-terminal BD of BRD3-using peptide libraries that contained either one or two acetyllysine residues. We discovered peptides with very strong consensus sequences and with affinities that are significantly higher than typical BD-peptide interactions. X-ray crystal structures also revealed modes of binding that have not been seen with natural ligands. Intriguingly, however, our sequences are not found in the human proteome, perhaps suggesting that strong binders to BDs might have been selected against during evolution.

"Click Chemistry": An Emerging Tool for Developing a New Class of Structural Motifs against Various Neurodegenerative Disorders.

Click chemistry is a set of easy, atom-economical reactions that are often utilized to combine two desired chemical entities. Click chemistry accelerates lead identification and optimization, reduces the complexity of chemical synthesis, and delivers extremely high yields without undesirable byproducts. The most well-known click chemistry reaction is the 1,3-dipolar cycloaddition of azides and alkynes to form 1,2,3-triazoles. The resulting 1,2,3-triazoles can serve as both bioisosteres and linkers, leading to an increase in their use in the field of drug discovery. The current Review focuses on the use of click chemistry to identify new molecules for treating neurodegenerative diseases and in other areas such as peptide targeting and the quantification of biomolecules.

Photocatalytic N‐Alkylation of NH‐Sulfoximines via Anti‐Markovnikov Hydroamination of Alkenes

AbstractSulfoximines, the isoelectronic with sulfones, represent a class of alternative and intriguing motifs in both discovery program and agrochemistry. N‐Alkylation on imines could significantly improve their bioactivities, but the lack of general method has hindered their further uptake by medicinal chemistry and drug development. Herein, we present a mild photocatalytic anti‐Markovnikov hydroamination of alkenes to construct N‐alkylated sulfoximines with broad substrate tolerance on primary, secondary and tertiary alkyl substituents as well as a diverse range of sulfoximines. The mechanistic studies support the photocatalytic pathway, and demonstrate that the alkene radical cation rather than the iminium radical serves as the key intermediate in the transformation.

Synthesis of imidazo[1,2-a]pyridine derivatives and Zolimidine via a novel zinc/iodine-catalyzed Ortoleva-King type protocol

Imidazo[1,2-a]pyridines belong to a class of heterocyclic motifs possessing unique structural and pharmacological properties making them an interesting and promising domain in the fields of drug discovery and medicinal chemistry. These molecules have witnessed many fascinating strategies for their synthesis due to their versatile attribute. We herein put forward, the first zinc-catalyzed Ortoleva-King type reaction for the synthesis of imidazo[1,2-a]pyridines. The reaction design involves the use of easily accessible and economical nano zinc oxide and molecular iodine as the catalytic dyad. Diverse acetophenones and 2-aminopyridines were used as substrates and the reaction was observed to be general fostering moderate to good results. Furthermore, we could synthesize Zolimidine (a gastro-protectant) via this one-pot reaction design as a validation to its efficacy in the pharmaceutical world.

Water on ceria{111}: Comparison between 23 experimental vibrational studies in the literature and new modeling.

Theoretical and experimental vibrational signatures of H2O and OH- (dissociated water) adsorbed on stoichiometric ceria{111} surfaces are compared. The experimental ones were collected from low-coverage experiments in the literature, and the theoretical anharmonic frequencies were generated using density functional theory calculations employing the optPBE-vdW functional for coverages from 0.5 to a few monolayers. It is found that (i) the experiments and our calculations overall agree well, lending credibility to both; (ii) the calculations manage to resolve the large class of H-bonded motifs into frequency classes that can guide experimental assignments; (iii) it is possible to find a geometrical H-bond definition that also captures the OH vibrational frequency downshifts well: R(H⋯O) ≤2.5 Å and the O-H⋯O angle θ ≥ 100°; and (iv) the frequency vs electric field relations for water and hydroxides (i.e., dissociated water) follow different and well-separated curves.

A specialized integrin-binding motif enables proTGF-β2 activation by integrin αVβ6 but not αVβ8

Activation of latent transforming growth factor (TGF)-β2 is incompletely understood. Unlike TGF-β1 and β3, the TGF-β2 prodomain lacks a seven-residue RGDLXX (L/I) integrin-recognition motif and is thought not to be activated by integrins. Here, we report the surprising finding that TGF-β2 contains a related but divergent 13-residue integrin-recognition motif (YTSGDQKTIKSTR) that specializes it for activation by integrin αVβ6 but not αVβ8. Both classes of motifs compete for the same binding site in αVβ6. Multiple changes in the longer motif underlie its specificity. ProTGF-β2 structures define interesting differences from proTGF-β1 and the structural context for activation by αVβ6. Some integrin-independent activation is also seen for proTGF-β2 and even more so for proTGF-β3. Our findings have important implications for therapeutics to αVβ6 in clinical trials for fibrosis, in which inhibition of TGF-β2 activation has not been anticipated.

Molecular mechanism of fatty acid activation of FFAR1

FFAR1 is a G-protein-coupled receptor (GPCR) that responds to circulating free fatty acids to enhance glucose-stimulated insulin secretion and release of incretin hormones. Due to the glucose-lowering effect of FFAR1 activation, potent agonists for this receptor have been developed for the treatment of diabetes. Previous structural and biochemical studies of FFAR1 showed multiple sites of ligand binding to the inactive state but left the mechanism of fatty acid interaction and receptor activation unknown. We used cryo-electron microscopy to elucidate structures of activated FFAR1 bound to a Gq mimetic, which were induced either by the endogenous FFA ligand docosahexaenoic acid or γ-linolenic acid and the agonist drug TAK-875. Our data identify the orthosteric pocket for fatty acids and show how both endogenous hormones and synthetic agonists induce changes in helical packing along the outside of the receptor that propagate to exposure of the G-protein-coupling site. These structures show how FFAR1 functions without the highly conserved "DRY" and "NPXXY" motifs of class A GPCRs and also illustrate how the orthosteric site of a receptor can be bypassed by membrane-embedded drugs to confer full activation of G protein signaling.

Construction of Acyclic All‐Carbon Quaternary Stereocenters and 1,3‐Nonadjacent Stereoelements via Organo/Metal Dual Catalyzed Asymmetric Allenylic Substitution of Aldehydes

AbstractA method for the asymmetric construction of functionalized acyclic all‐carbon quaternary stereocenters and 1,3‐nonadjacent stereoelements has been developed via organo/metal dual catalyzed asymmetric allenylic substitution of branched and linear aldehydes, by developing an unknown acyclic secondary‐secondary diamine as the enabling organocatalyst. Although it is believed that secondary‐secondary diamines are difficult to be used as the organocatalysts in organo/metal dual catalysis, this study demonstrates that such diamines can be successfully combined with a metal catalyst in organo/metal dual catalysis. Our study enables the asymmetric construction of two important classes of motifs which were previously difficult to access, axially chiral allene‐containing acyclic all‐carbon quaternary stereocenters and 1,3‐nonadjacent stereoelements bearing allenyl axial chirality and central chirality, in good yields with high enantio‐ and diastereoselectivity.

Construction of Acyclic All-Carbon Quaternary Stereocenters and 1,3-Nonadjacent Stereoelements via Organo/Metal Dual Catalyzed Asymmetric Allenylic Substitution of Aldehydes.

A method for the asymmetric construction of functionalized acyclic all-carbon quaternary stereocenters and 1,3-nonadjacent stereoelements has been developed via organo/metal dual catalyzed asymmetric allenylic substitution of branched and linear aldehydes, by developing an unknown acyclic secondary-secondary diamine as the enabling organocatalyst. Although it is believed that secondary-secondary diamines are difficult to be used as the organocatalysts in organo/metal dual catalysis, this study demonstrates that such diamines can be successfully combined with a metal catalyst in organo/metal dual catalysis. Our study enables the asymmetric construction of two important classes of motifs which were previously difficult to access, axially chiral allene-containing acyclic all-carbon quaternary stereocenters and 1,3-nonadjacent stereoelements bearing allenyl axial chirality and central chirality, in good yields with high enantio- and diastereoselectivity.

Small RNAs, Large Networks: Posttranscriptional Regulons in Gram-Negative Bacteria.

Small regulatory RNA (sRNAs) are key mediators of posttranscriptional gene control in bacteria. Assisted by RNA-binding proteins, a single sRNA often modulates the expression of dozens of genes, and thus sRNAs frequently adopt central roles in regulatory networks. Posttranscriptional regulation by sRNAs comes with several unique features that cannot be achieved by transcriptional regulators. However, for optimal network performance, transcriptional and posttranscriptional control mechanisms typically go hand-in-hand. This view is reflected by the ever-growing class of mixed network motifs involving sRNAs and transcription factors, which are ubiquitous in biology and whose regulatory properties we are beginning to understand. In addition, sRNA activity can be antagonized by base-pairing with sponge RNAs, adding yet another layer of complexity to these networks. In this article, we summarize the regulatory concepts underlying sRNA-mediated gene control in bacteria and discuss how sRNAs shape the output of a network, focusing on several key examples.

Activation mechanism of the human Smoothened receptor

Smoothened (SMO) is a membrane protein of the class F subfamily of G protein-coupled receptors (GPCRs) and maintains homeostasis of cellular differentiation. SMO undergoes conformational change during activation, transmitting the signal across the membrane, making it amenable to bind to its intracellular signaling partner. Receptor activation has been studied at length for class A receptors, but the mechanism of class F receptor activation remains unknown. Agonists and antagonists bound to SMO at sites in the transmembrane domain (TMD) and the cysteine-rich domain have been characterized, giving a static view of the various conformations SMO adopts. Although the structures of the inactive and active SMO outline the residue-level transitions, a kinetic view of the overall activation process remains unexplored for class F receptors. We describe SMO’s activation process in atomistic detail by performing 300 μs of molecular dynamics simulations and combining it with Markov state model theory. A molecular switch, conserved across class F and analogous to the activation-mediating D-R-Y motif in class A receptors, is observed to break during activation. We also show that this transition occurs in a stage-wise movement of the transmembrane helices: TM6 first, followed by TM5. To see how modulators affect SMO activity, we simulated agonist and antagonist-bound SMO. We observed that agonist-bound SMO has an expanded hydrophobic tunnel in SMO’s core TMD, whereas antagonist-bound SMO shrinks this tunnel, further supporting the hypothesis that cholesterol travels through a tunnel inside Smoothened to activate it. In summary, this study elucidates the distinct activation mechanism of class F GPCRs and shows that SMO’s activation process rearranges the core TMD to open a hydrophobic conduit for cholesterol transport.