A DNA‐Encoded Chemical Library Incorporating Elements of Natural Macrocycles

Here we show a seven‐step chemical synthesis of a DNA‐encoded macrocycle library (DEML) on DNA. Inspired by polyketide and mixed peptide‐polyketide natural products, the library was designed to incorporate rich backbone diversity. Achieving this diversity, however, comes at the cost of the custom synthesis of bifunctional building block libraries. This study outlines the importance of careful retrosynthetic design in DNA‐encoded libraries, while revealing areas where new DNA synthetic methods are needed.     

Selection of DNA‐Encoded Dynamic Chemical Libraries for Direct Inhibitor Discovery

Dynamic combinatorial libraries (DCLs) is a powerful tool for ligand discovery in biomedical research; however, the application of DCLs has been hampered by their low diversity. Recently, the concept of DNA encoding has been employed in DCLs to create DNA‐encoded dynamic libraries (DEDLs); however, all current DEDLs are limited to fragment identification, and a challenging process of fragment linking is required after selection. We report an anchor‐directed DEDL approach that can identify full ligand structures from large‐scale DEDLs. This method is also able to convert unbiased libraries into focused ones targeting specific protein classes. We demonstrated this method by selecting DEDLs against five proteins, and novel inhibitors were identified for all targets. Notably, several selective BD1/BD2 inhibitors were identified from the selections against bromodomain 4 (BRD4), an important anti‐cancer drug target. This work may provide a broadly applicable method for inhibitor discovery.     

DNA‐Encoded Dynamic Combinatorial Chemical Libraries

Dynamic combinatorial chemistry (DCC) explores the thermodynamic equilibrium of reversible reactions. Its application in the discovery of protein binders is largely limited by difficulties in the analysis of complex reaction mixtures. DNA‐encoded chemical library (DECL) technology allows the selection of binders from a mixture of up to billions of different compounds; however, experimental results often show low a signal‐to‐noise ratio and poor correlation between enrichment factor and binding affinity. Herein we describe the design and application of DNA‐encoded dynamic combinatorial chemical libraries (EDCCLs). Our experiments have shown that the EDCCL approach can be used not only to convert monovalent binders into high‐affinity bivalent binders, but also to cause remarkably enhanced enrichment of potent bivalent binders by driving their in situ synthesis. We also demonstrate the application of EDCCLs in DNA‐templated chemical reactions.     

Palladium Nanoparticles Supported on a Porous Organic Polymer: An Efficient Catalyst for Suzuki‐Miyaura and Sonogashira Coupling Reactions

A new porous organic polymer (POP) with high thermal stability and large surface area has been synthesized and applied in the preparation of Pd/POP catalyst. Pd/POP was characterized by XRD, TGA, SEM and TEM. The catalyst consists of highly dispersed palladium nanoparticles of 0.9–4 nm size on POP with a large surface area of 650 m²/g. It presents high catalytic activity for Suzuki‐Miyaura and Sonogashira reactions. The catalyst was reusable for three to five times without significant loss of activity.     

A Chemistry for Incorporation of Selenium into DNA‐Encoded Libraries

Conventional direct C?H selenylation suffers from simple selenation with limited atom economy and complicated reaction system. In this work, we designed benzoselenazolone as a novel bifunctional selenide reagent for both off‐ and on‐DNA C?H selenylation under rhodium(III) catalysis. We show that using benzoselenazolone allowed production of a series of selenylation products containing an adjacent aminoacyl group in a fast and efficient way, with high atom economy. The synthetic application of this method was demonstrated by taking advantage of the amide functionality as a nucleophile, directing group, and amide coupling partner. This work shows great potential in facilitating rapid construction of selenium‐containing DNA‐encoded chemical libraries (SeDELs), and lays the foundation for the development of selenium‐containing drugs.     

Small Targeted Cytotoxics: Current State and Promises from DNA‐Encoded Chemical Libraries

The targeted delivery of potent cytotoxic agents has emerged as a promising strategy for the treatment of cancer and other serious conditions. Traditionally, antibodies against markers of disease have been used as drug‐delivery vehicles. More recently, lower molecular weight ligands have been proposed for the generation of a novel class of targeted cytotoxics with improved properties. Advances in this field crucially rely on efficient methods for the identification and optimization of organic molecules capable of high‐affinity binding and selective recognition of target proteins. The advent of DNA‐encoded chemical libraries allows the construction and screening of compound collections of unprecedented size. In this Review, we survey developments in the field of small ligand‐based targeted cytotoxics and show how innovative library technologies will help develop the drugs of the future.     

Discovery of Small‐Molecule Interleukin‐2 Inhibitors from a DNA‐Encoded Chemical Library

Libraries of chemical compounds individually coupled to encoding DNA tags (DNA‐encoded chemical libraries) hold promise to facilitate exceptionally efficient ligand discovery. We constructed a high‐quality DNA‐encoded chemical library comprising 30 000 drug‐like compounds; this was screened in 170 different affinity capture experiments. High‐throughput sequencing allowed the evaluation of 120 million DNA codes for a systematic analysis of selection strategies and statistically robust identification of binding molecules. Selections performed against the tumor‐associated antigen carbonic anhydrase IX (CA IX) and the pro‐inflammatory cytokine interleukin‐2 (IL‐2) yielded potent inhibitors with exquisite target specificity. The binding mode of the revealed pharmacophore against IL‐2 was confirmed by molecular docking. Our findings suggest that DNA‐encoded chemical libraries allow the facile identification of drug‐like ligands principally to any protein of choice, including molecules capable of disrupting high‐affinity protein–protein interactions.     

Identification of Structure–Activity Relationships from Screening a Structurally Compact DNA‐Encoded Chemical Library

Methods for the rapid and inexpensive discovery of hit compounds are essential for pharmaceutical research and DNA‐encoded chemical libraries represent promising tools for this purpose. We here report on the design and synthesis of DAL‐100K, a DNA‐encoded chemical library containing 103 200 structurally compact compounds. Affinity screening experiments and DNA‐sequencing analysis provided ligands with nanomolar affinities to several proteins, including prostate‐specific membrane antigen and tankyrase 1. Correlations of sequence counts with binding affinities and potencies of enzyme inhibition were observed and enabled the identification of structural features critical for activity. These results indicate that libraries of this type represent a useful source of small‐molecule binders for target proteins of pharmaceutical interest and information on structural features important for binding.     

Polyoxometalate‐Mediated One‐Pot Synthesis of Pd Nanocrystals with Controlled Morphologies for Efficient Chemical and Electrochemical Catalysis

Polyoxometalates (POMs), as inorganic ligands, can endow metal nanocrystals (NCs) with unique reactivities on account of their characteristic redox properties. In the present work, we present a facile POM‐mediated one‐pot aqueous synthesis method for the production of single‐crystalline Pd NCs with controlled shapes and sizes. The POMs could function as both reducing and stabilizing agents in the formation of NCs, and thus gave a fine control over the nucleation and growth kinetics of NCs. The prepared POM‐stabilized Pd NCs exhibited excellent catalytic activity and stability for electrocatalytic (formic acid oxidation) and catalytic (Suzuki coupling) reactions compared to Pd NCs prepared without the POMs. This shows that the POMs play a pivotal role in determining the catalytic performance, as well as the growth, of NCs. We envision that the present approach can offer a convenient way to develop efficient NC‐based catalyst systems.     

Biomolecular Assemblies Combining Two Orthogonal Copper‐Mediated Ligations in a One‐Pot Reaction

The access to multifunctional biomolecular compounds involves multistep reactions usually with a complicated protection scheme and lengthy separation processes. The development of a strategy combining several orthogonal ligations is highly desirable. Herein, we introduce a new method that involves two orthogonal copper‐mediated ligations of azide with alkyne, and amine with thioacid. We established compatible conditions to carry out molecular assemblies of three different chemical components in a single one‐pot reaction. The effectiveness of the method was demonstrated in the synthesis of biomolecular compounds that are known to target tumor tissue. The simple reaction conditions suggest that this strategy of combining several orthogonal ligations could have wide potential for the chemical synthesis of complex macromolecules.     

Advances in Selective Carbon‐Heteroatom Coupling Reactions

Most of compounds containing more than one reactive groups may produce several byproducts during the coupling process. Selective carbon‐heteroatom coupling reactions, which have merits of high synthetic efficiency and step economy, are the best choice to resolve the problem. Although they have made great progress, they deserve further exploration. This review discusses their recent advances and intend to inspire the research in the future. It is organized on the basis of selective carbon‐heteroatom coupling reaction types, including selective C−N and C−N, C−N and C−O, C−O and C−O, C−C and C−N coupling reactions.     

New route to synthesis of PVP‐stabilized palladium(0) nanoclusters and their enhanced catalytic activity in Heck and Suzuki cross‐coupling reactions

Herein we report a new method for the synthesis and characterization of PVP‐stabilized palladium(0) nanoclusters and their enhanced catalytic activity in Suzuki coupling and Heck reactions of aryl bromides with phenylboronic acid and styrene, respectively, under mild conditions. The PVP‐stabilized palladium(0) nanoclusters with a particle size of 4.5 ± 1.1 nm were prepared using a new method: refluxing a mixture of potassium tetrachloropalladate(II) and PVP in methanol at 80 °C for 1 h followed by reduction with sodium borohydride. Palladium(0) nanoclusters prepared in this way were stable in solution for weeks, could be isolated as solid materials and were characterized by TEM, XPS, UV–vis, and XRD techniques. The PVP‐stabilized palladium(0) nanoclusters were active catalysts in Heck and Suzuki coupling reactions of arylbromides with styrene and phenylboronic acid affording stilbenes and biphenyls, respectively, in high yield. Recycling experiments showed that PVP‐stabilized palladium(0) nanoclusters could be used five times with essentially no loss in activity in the Heck and Suzuki coupling reactions. Copyright © 2009 John Wiley & Sons, Ltd.     

有机-无机杂化材料负载的钯催化剂: 一种新型有效而可循环的无铜Sonogashira偶联反应

本文报道了有机-无机杂化材料固载的钯催化的无铜Sonogashira偶联反应。在3-[N,N-双（二苯基膦）氨基）]丙基功能化的硅胶固载的钯催化下,末端炔烃和碘代芳烃、溴代芳烃的偶联反应生成高产率相应的偶联产物。反应条件包括使用乙二醇为溶剂,三乙胺为碱。而且硅胶负载的膦钯催化剂和溶剂乙二醇经简单处理,可循环使用6次不降低活性。     

Immobilized Pd on (S)‐methyl histidinate‐modified multi‐walled carbon nanotubes: a powerful and recyclable catalyst for Mizoroki–Heck and Suzuki–Miyaura C–C cross‐coupling reactions in green solvents and under mild conditions

A stable and powerful heterogeneous palladium catalyst was synthesized using immobilized palladium on (S)‐methyl histidinate bonded onto the surface of multi‐walled carbon nanotubes. The catalyst was characterized using a combination of Fourier transform infrared and X‐ray photoelectron spectroscopies, transmission electron microscopy, X‐ray powder diffraction and inductively coupled plasma, thermogravimetric and elemental analyses. This new air‐ and moisture‐stable phosphine‐free palladium catalyst was found to be highly active and reusable in Mizoroki–Heck and Suzuki–Miyaura cross‐coupling reactions in poly(ethylene glycol) and aqueous ethanol as green solvents using an extremely small amount of palladium under mild conditions. Copyright © 2016 John Wiley & Sons, Ltd.     

氯化钯多相催化无配体室温Suzuki-Miyaura反应

本文报道了温和及有效的氯化钯多相催化无配体Suzuki-Miyaura反应,反应在室温、敞口容器和短时间内完成。各种碘代芳烃、溴代芳烃和活泼的氯代芳烃与四苯硼钠和芳香有机硼酸偶联高产率生成相应的产物,而且催化剂可循环使用4次不降低活性。     

Synthesis and characterizations of N,N′‐bis(diphenylphosphino)‐2‐(aminomethyl)aniline derivatives: application of a palladium(II) complex as pre‐catalyst in Heck and Suzuki cross‐coupling reactions

The reaction of 2‐(aminomethyl)aniline with 2 equivalents of PPh₂Cl in the presence of Et₃N, proceeds in CH₂Cl₂ to give N,N′‐bis(diphenylphosphino)‐2‐(aminomethyl)aniline 1 in good yield. Oxidation of 1 with aqueous H₂O₂, elemental sulfur or gray selenium gave the corresponding oxide, sulfide and selenide dichalcogenides [Ph₂P(E)NHC₆H₄CH₂NHP(E)Ph₂] (E: O, 2a; S, 2b; Se, 2c), respectively. The reaction of [Ph₂PNHC₆H₄CH₂NHPPh₂] with PdCl₂(cod), PtCl₂(cod) and [Cu(MeCN)₄]PF₆ gave the corresponding chelate complexes, PdCl₂1, PtCl₂1 and [Cu(1)₂]PF₆. The new compounds were fully characterized by NMR, IR spectroscopy and elemental analysis. The catalytic activity of the Pd(II) complex was tested in the Suzuki coupling and Heck reactions. The Pd(II) complex catalyzes the Suzuki coupling and Heck reaction, affording biphenyls and stilbenes respectively, in good yields. Copyright © 2009 John Wiley & Sons, Ltd.     

A Suzuki‐type cross‐coupling reaction of arylacetylene halides with arylboronic acids

A PdCl₂‐catalyzed direct alkynylation of arylboronic acids to give diarylacetylenes is described. The optimal conditions using PdCl₂ as catalyst, MeOH PhMe H₂O as solvent and K₂CO₃ as base effectively suppressed the formation of homo‐coupling product and afforded moderate to good yield of the desired unsymmetrical coupling product. This reaction represents a Suzuki‐type sp²(C B)–sp(C X) cross‐coupling. Copyright © 2011 John Wiley & Sons, Ltd.