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Zhou Y, Shen W, Gao Y, Peng J, Li Q, Wei X, Liu S, Lam FS, Mayol-Llinàs J, Zhao G, Li G, Li Y, Sun H, Cao Y, Li X. Protein-templated ligand discovery via the selection of DNA-encoded dynamic libraries. Nat Chem 2024; 16:543-555. [PMID: 38326646 DOI: 10.1038/s41557-024-01442-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2023] [Accepted: 01/04/2024] [Indexed: 02/09/2024]
Abstract
DNA-encoded chemical libraries (DELs) have become a powerful technology platform in drug discovery. Dual-pharmacophore DELs display two sets of small molecules at the termini of DNA duplexes, thereby enabling the identification of synergistic binders against biological targets, and have been successfully applied in fragment-based ligand discovery and affinity maturation of known ligands. However, dual-pharmacophore DELs identify separate binders that require subsequent linking to obtain the full ligands, which is often challenging. Here we report a protein-templated DEL selection approach that can identify full ligand/inhibitor structures from DNA-encoded dynamic libraries (DEDLs) without the need for subsequent fragment linking. Our approach is based on dynamic DNA hybridization and target-templated in situ ligand synthesis, and it incorporates and encodes the linker structures in the library, along with the building blocks, to be sampled by the target protein. To demonstrate the performance of this method, 4.35-million- and 3.00-million-member DEDLs with different library architectures were prepared, and hit selection was achieved against four therapeutically relevant target proteins.
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Grants
- AoE/P-705/16, 17301118, 17111319, 17303220, 17300321, 17318322, C7005-20G, C7016-22G, and 2122-7S04 Research Grants Council, University Grants Committee (RGC, UGC)
- 21877093, 22222702, and 91953119 National Science Foundation of China | National Natural Science Foundation of China-Yunnan Joint Fund (NSFC-Yunnan Joint Fund)
- Health@InnoHK Innovation and Technology Commission (ITF)
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Affiliation(s)
- Yu Zhou
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
- Laboratory for Synthetic Chemistry and Chemical Biology Limited, Health@InnoHK, Innovation and Technology Commission, Hong Kong SAR, China
| | - Wenyin Shen
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Ying Gao
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Jianzhao Peng
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Qingrong Li
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Xueying Wei
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Shihao Liu
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Fong Sang Lam
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China
| | - Joan Mayol-Llinàs
- Laboratory for Synthetic Chemistry and Chemical Biology Limited, Health@InnoHK, Innovation and Technology Commission, Hong Kong SAR, China
| | - Guixian Zhao
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences; Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing, China
| | - Gang Li
- Institute of Systems and Physical Biology, Shenzhen Bay Laboratory, Shenzhen, China
| | - Yizhou Li
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences; Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing, China
| | - Hongzhe Sun
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China.
| | - Yan Cao
- School of Pharmacy, Naval Medical University, Shanghai, China.
| | - Xiaoyu Li
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Hong Kong SAR, China.
- Laboratory for Synthetic Chemistry and Chemical Biology Limited, Health@InnoHK, Innovation and Technology Commission, Hong Kong SAR, China.
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2
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Assembly of Biologically Functional Structures by Nucleic Acid Templating: Implementation of a Strategy to Overcome Inhibition by Template Excess. Molecules 2022; 27:molecules27206831. [PMID: 36296424 PMCID: PMC9610079 DOI: 10.3390/molecules27206831] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2022] [Revised: 10/06/2022] [Accepted: 10/07/2022] [Indexed: 11/18/2022] Open
Abstract
Delivery of therapeutic molecules to pathogenic cells is often hampered by unintended toxicity to normal cells. In principle, this problem can be circumvented if the therapeutic effector molecule is split into two inactive components, and only assembled on or within the target cell itself. Such an in situ process can be realized by exploiting target-specific molecules as templates to direct proximity-enhanced assembly. Modified nucleic acids carrying inert precursor fragments can be designed to co-hybridize on a target-specific template nucleic acid, such that the enforced proximity accelerates assembly of a functional molecule for antibody recognition. We demonstrate the in vitro feasibility of this adaptation of nucleic acid-templated synthesis (NATS) using oligonucleotides bearing modified peptides (“haplomers”), for templated assembly of a mimotope recognized by the therapeutic antibody trastuzumab. Enforced proximity promotes mimotope assembly via traceless native chemical ligation. Nevertheless, titration of participating haplomers through template excess is a potential limitation of trimolecular NATS. In order to overcome this problem, we devised a strategy where haplomer hybridization can only occur in the presence of target, without being subject to titration effects. This generalizable NATS modification may find future applications in enabling directed targeting of pathological cells.
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Shi B, Zhou Y, Li X. Recent advances in DNA-encoded dynamic libraries. RSC Chem Biol 2022; 3:407-419. [PMID: 35441147 PMCID: PMC8985084 DOI: 10.1039/d2cb00007e] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2022] [Accepted: 02/16/2022] [Indexed: 11/21/2022] Open
Abstract
The DNA-encoded chemical library (DEL) has emerged as a powerful technology platform in drug discovery and is also gaining momentum in academic research. The rapid development of DNA-/DEL-compatible chemistries has greatly expanded the chemical space accessible to DELs. DEL technology has been widely adopted in the pharmaceutical industry and a number of clinical drug candidates have been identified from DEL selections. Recent innovations have combined DELs with other legacy and emerging techniques. Among them, the DNA-encoded dynamic library (DEDL) introduces DNA encoding into the classic dynamic combinatorial libraries (DCLs) and also integrates the principle of fragment-based drug discovery (FBDD), making DEDL a novel approach with distinct features from static DELs. In this Review, we provide a summary of the recently developed DEDL methods and their applications. Future developments in DEDLs are expected to extend the application scope of DELs to complex biological systems with unique ligand-discovery capabilities.
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Affiliation(s)
- Bingbing Shi
- Department of Biochemistry and Molecular Biology, College of Basic Medicine, Jining Medical University Jining Shandong 272067 P. R. China
| | - Yu Zhou
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong Pokfulam Road Hong Kong SAR China
| | - Xiaoyu Li
- Department of Chemistry and State Key Laboratory of Synthetic Chemistry, The University of Hong Kong Pokfulam Road Hong Kong SAR China
- Laboratory for Synthetic Chemistry and Chemical Biology Limited, Health@InnoHK, Innovation and Technology Commission Units 1503-1511 15/F. Building 17W Hong Kong SAR China
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4
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Han M, Liu Y, Zhang F, Sun D, Jiang J. Effect of galactose side-chain on the self-assembly of xyloglucan macromolecule. Carbohydr Polym 2020; 246:116577. [DOI: 10.1016/j.carbpol.2020.116577] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Accepted: 06/03/2020] [Indexed: 12/13/2022]
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5
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Mende M, Bordoni V, Tsouka A, Loeffler FF, Delbianco M, Seeberger PH. Multivalent glycan arrays. Faraday Discuss 2020; 219:9-32. [PMID: 31298252 DOI: 10.1039/c9fd00080a] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Glycan microarrays have become a powerful technology to study biological processes, such as cell-cell interaction, inflammation, and infections. Yet, several challenges, especially in multivalent display, remain. In this introductory lecture we discuss the state-of-the-art glycan microarray technology, with emphasis on novel approaches to access collections of pure glycans and their immobilization on surfaces. Future directions to mimic the natural glycan presentation on an array format, as well as in situ generation of combinatorial glycan collections, are discussed.
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Affiliation(s)
- Marco Mende
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany.
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6
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Surin M, Ulrich S. From Interaction to Function in DNA-Templated Supramolecular Self-Assemblies. ChemistryOpen 2020; 9:480-498. [PMID: 32328404 PMCID: PMC7175023 DOI: 10.1002/open.202000013] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Revised: 03/24/2020] [Indexed: 12/13/2022] Open
Abstract
DNA-templated self-assembly represents a rich and growing subset of supramolecular chemistry where functional self-assemblies are programmed in a versatile manner using nucleic acids as readily-available and readily-tunable templates. In this review, we summarize the different DNA recognition modes and the basic supramolecular interactions at play in this context. We discuss the recent results that report the DNA-templated self-assembly of small molecules into complex yet precise nanoarrays, going from 1D to 3D architectures. Finally, we show their emerging functions as photonic/electronic nanowires, sensors, gene delivery vectors, and supramolecular catalysts, and their growing applications in a wide range of area from materials to biological sciences.
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Affiliation(s)
- Mathieu Surin
- Laboratory for Chemistry of Novel MaterialsCenter of Innovation and Research in Materials and Polymers (CIRMAP)University of Mons-UMONS7000MonsBelgium
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7
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8
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Pianowski ZL. Recent Implementations of Molecular Photoswitches into Smart Materials and Biological Systems. Chemistry 2019; 25:5128-5144. [PMID: 30614091 DOI: 10.1002/chem.201805814] [Citation(s) in RCA: 185] [Impact Index Per Article: 37.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2018] [Revised: 12/30/2018] [Indexed: 12/11/2022]
Abstract
Light is a nearly ideal stimulus for molecular systems. It delivers information encoded in the form of wavelengths and their intensities with high precision in space and time. Light is a mild trigger that does not permanently contaminate targeted samples. Its energy can be reversibly transformed into molecular motion, polarity, or flexibility changes. This leads to sophisticated functions at the supramolecular and macroscopic levels, from light-triggered nanomaterials to photocontrol over biological systems. New methods and molecular adapters of light are reported almost daily. Recently reported applications of photoresponsive systems, particularly azobenzenes, spiropyrans, diarylethenes, and indigoids, for smart materials and photocontrol of biological setups are described herein with the aim to demonstrate that the 21st century has become the Age of Enlightenment-"Le siècle des Lumières"-in molecular sciences.
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Affiliation(s)
- Zbigniew L Pianowski
- Institut für Organische Chemie, Karlsruher Institut für Technologie, Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany.,Institut für Toxikologie und Genetik, Karlsruher Institut für Technologie, Campus Nord, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
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9
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Hsieh WC, Martinez GR, Wang A, Wu SF, Chamdia R, Ly DH. Stereochemical conversion of nucleic acid circuits via strand displacement. Commun Chem 2018. [DOI: 10.1038/s42004-018-0089-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
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10
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Manicardi A, Rozzi A, Korom S, Corradini R. Building on the peptide nucleic acid (PNA) scaffold: a biomolecular engineering approach. Supramol Chem 2017. [DOI: 10.1080/10610278.2017.1371720] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Alex Manicardi
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parma, Italy
- Organic and Biomimetic Chemistry Research Group (OBCR), Department of Organic and Macromolecular Chemistry, Faculty of Sciences – Ghent University Campus Sterre, Belgium
| | - Andrea Rozzi
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parma, Italy
| | - Saša Korom
- National Institute for Biostructures and Biosystems (INBB), Roma, Italy
| | - Roberto Corradini
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parma, Italy
- National Institute for Biostructures and Biosystems (INBB), Roma, Italy
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11
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Recent advances on the encoding and selection methods of DNA-encoded chemical library. Bioorg Med Chem Lett 2016; 27:361-369. [PMID: 28011218 DOI: 10.1016/j.bmcl.2016.12.025] [Citation(s) in RCA: 51] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2016] [Revised: 12/07/2016] [Accepted: 12/08/2016] [Indexed: 11/22/2022]
Abstract
DNA-encoded chemical library (DEL) has emerged as a powerful and versatile tool for ligand discovery in chemical biology research and in drug discovery. Encoding and selection methods are two of the most important technological aspects of DEL that can dictate the performance and utilities of DELs. In this digest, we have summarized recent advances on the encoding and selection strategies of DEL and also discussed the latest developments on DNA-encoded dynamic library, a new frontier in DEL research.
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12
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Viéville JMP, Barluenga S, Winssinger N, Delsuc MA. Duplex formation and secondary structure of γ-PNA observed by NMR and CD. Biophys Chem 2015; 210:9-13. [PMID: 26493008 DOI: 10.1016/j.bpc.2015.09.002] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2015] [Revised: 08/13/2015] [Accepted: 09/07/2015] [Indexed: 10/23/2022]
Abstract
Peptide nucleic acids (PNAs) are non-natural oligonucleotides mimics, wherein the phosphoribose backbone has been replaced by a peptidic moiety (N-(2-aminoethyl)glycine). This peptidic backbone lends itself to substitution and the γ-position has proven to yield oligomers with enhanced hybridization properties. In this study, we use Nuclear Magnetic Resonance (NMR) and Circular Dichroism (CD) to explore the properties of the supramolecular duplexes formed by these species. We show that standard Watson-Crick base pair as well as non-standard ones are formed in solution. The duplexes thus formed present marked melting transition temperatures substantially higher than their nucleic acid homologs. Moreover, the presence of a chiral group on the γ-peptidic backbone increases further this transition temperature, leading to very stable duplexes. PNA duplexes with a chiral backbone present a marked chiral secondary structure, observed by CD, and showing a common folding pattern for all studied structures. Nevertheless small differences are observed depending on the details of the nucleobase sequence.
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Affiliation(s)
- J M P Viéville
- Strasbourg University, Plateforme d'Analyse Chimique de Strasbourg Illkirch, 74 route du Rhin 67401 Illkirch, France
| | - S Barluenga
- Department of Organic Chemistry, University of Geneva, Geneva CH1211, Switzerland
| | - N Winssinger
- Department of Organic Chemistry, University of Geneva, Geneva CH1211, Switzerland
| | - M A Delsuc
- IGBMC, CNRS UMR 7104, 1 rue Laurent Fries BP10142, 67404 Illkirch France.
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13
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Novoa A, Winssinger N. DNA display of glycoconjugates to emulate oligomeric interactions of glycans. Beilstein J Org Chem 2015; 11:707-19. [PMID: 26113879 PMCID: PMC4462854 DOI: 10.3762/bjoc.11.81] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Accepted: 05/06/2015] [Indexed: 12/21/2022] Open
Abstract
Glycans (carbohydrate portion of glycoproteins and glycolipids) frequently exert their function through oligomeric interactions involving multiple carbohydrate units. In efforts to recapitulate the diverse spatial arrangements of the carbohydrate units, assemblies based on hybridization of nucleic acid conjugates have been used to display simplified ligands with tailored interligand distances and valences. The programmability of the assemblies lends itself to a combinatorial display of multiple ligands. Recent efforts in the synthesis and applications of such conjugates are discussed.
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Affiliation(s)
- Alexandre Novoa
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva 30, quai Ernest Ansermet, 1211 Geneva, Switzerland
| | - Nicolas Winssinger
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva 30, quai Ernest Ansermet, 1211 Geneva, Switzerland
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14
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Li G, Zheng W, Liu Y, Li X. Novel encoding methods for DNA-templated chemical libraries. Curr Opin Chem Biol 2015; 26:25-33. [PMID: 25635927 DOI: 10.1016/j.cbpa.2015.01.004] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Accepted: 01/08/2015] [Indexed: 12/12/2022]
Abstract
Among various types of DNA-encoded chemical libraries, DNA-templated library takes advantage of the sequence-specificity of DNA hybridization, enabling not only highly effective DNA-templated chemical reactions, but also high fidelity in library encoding. This brief review summarizes recent advances that have been made on the encoding strategies for DNA-templated libraries, and it also highlights their respective advantages and limitations for the preparation of DNA-encoded libraries.
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Affiliation(s)
- Gang Li
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education, Beijing National Laboratory of Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Wenlu Zheng
- Key Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen 518055, China
| | - Ying Liu
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education, Beijing National Laboratory of Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
| | - Xiaoyu Li
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education, Beijing National Laboratory of Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China; Key Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen 518055, China.
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15
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Gholami Z, Hanley Q. Controlled assembly of SNAP-PNA-fluorophore systems on DNA templates to produce fluorescence resonance energy transfer. Bioconjug Chem 2014; 25:1820-8. [PMID: 25191824 DOI: 10.1021/bc500319p] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
The SNAP protein is a widely used self-labeling tag that can be used for tracking protein localization and trafficking in living systems. A model system providing controlled alignment of SNAP-tag units can provide a new way to study clustering of fusion proteins. In this work, fluorescent SNAP-PNA conjugates were controllably assembled on DNA frameworks, forming dimers, trimers, and tetramers. Modification of peptide nucleic acid (PNA) with the O(6)-benzyl guanine (BG) group allowed the generation of site-selective covalent links between PNA and the SNAP protein. The modified BG-PNAs were labeled with fluorescent Atto dyes and subsequently chemo-selectively conjugated to SNAP protein. Efficient assembly into dimer and oligomer forms was verified via size exclusion chromatography (SEC), electrophoresis (SDS-PAGE), and fluorescence spectroscopy. DNA-directed assembly of homo- and heterodimers of SNAP-PNA constructs induced homo- and hetero-FRET, respectively. Longer DNA scaffolds controllably aligned similar fluorescent SNAP-PNA constructs into higher oligomers exhibiting homo-FRET. The combined SEC and homo-FRET studies indicated the 1:1 and saturated assemblies of SNAP-PNA-fluorophore:DNA formed preferentially in this system. This suggested a kinetic/stoichiometric model of assembly rather than binomially distributed products. These BG-PNA-fluorophore building blocks allow facile introduction of fluorophores and/or assembly directing moieties onto any protein containing SNAP. Template-directed assembly of PNA-modified SNAP proteins may be used to investigate clustering behavior both with and without fluorescent labels, which may find use in the study of assembly processes in cells.
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Affiliation(s)
- Zahra Gholami
- School of Science and Technology, Nottingham Trent University , Clifton Lane, Nottingham NG11 8NS, United Kingdom
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16
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James C, Rush AM, Insley T, Vuković L, Adamiak L, Král P, Gianneschi NC. Poly(oligonucleotide). J Am Chem Soc 2014; 136:11216-9. [PMID: 25077676 PMCID: PMC4140503 DOI: 10.1021/ja503142s] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2014] [Indexed: 01/01/2023]
Abstract
Here we report the preparation of poly(oligonucleotide) brush polymers and amphiphilic brush copolymers from nucleic acid monomers via graft-through polymerization. We describe the polymerization of PNA-norbornyl monomers to yield poly-PNA (poly(peptide nucleic acid)) via ring-opening metathesis polymerization (ROMP) with the initiator, (IMesH2)(C5H5N)2(Cl)2RuCHPh.1 In addition, we present the preparation of poly-PNA nanoparticles from amphiphilic block copolymers and describe their hybridization to a complementary single-stranded DNA (ssDNA) oligonucleotide.
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Affiliation(s)
- Carrie
R. James
- Department
of Chemistry and Biochemistry, University
of California, San Diego, La Jolla, California 92093, United States
| | - Anthony M. Rush
- Department
of Chemistry and Biochemistry, University
of California, San Diego, La Jolla, California 92093, United States
| | - Thomas Insley
- Department of Chemistry, Department of Physics University
of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Lela Vuković
- Department of Chemistry, Department of Physics University
of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Lisa Adamiak
- Department
of Chemistry and Biochemistry, University
of California, San Diego, La Jolla, California 92093, United States
| | - Petr Král
- Department of Chemistry, Department of Physics University
of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Nathan C. Gianneschi
- Department
of Chemistry and Biochemistry, University
of California, San Diego, La Jolla, California 92093, United States
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17
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Saneyoshi H, Shimada N, Maruyama A, Ito Y, Abe H. Polycation-assisted DNA detection by reduction triggered fluorescence amplification probe. Bioorg Med Chem Lett 2013; 23:6851-3. [DOI: 10.1016/j.bmcl.2013.10.005] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2013] [Revised: 09/28/2013] [Accepted: 10/02/2013] [Indexed: 10/26/2022]
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18
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Sadhu KK, Röthlingshöfer M, Winssinger N. DNA as a Platform to Program Assemblies with Emerging Functions in Chemical Biology. Isr J Chem 2013. [DOI: 10.1002/ijch.201200100] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Kalyan K. Sadhu
- Institut de Science et Ingénierie Supramoléculaires (ISIS – UMR 7006), Université de Strasbourg – CNRS, 8 allée Gaspard Monge, F67000 Strasbourg (France)
| | - Manuel Röthlingshöfer
- Institut de Science et Ingénierie Supramoléculaires (ISIS – UMR 7006), Université de Strasbourg – CNRS, 8 allée Gaspard Monge, F67000 Strasbourg (France)
| | - Nicolas Winssinger
- Institut de Science et Ingénierie Supramoléculaires (ISIS – UMR 7006), Université de Strasbourg – CNRS, 8 allée Gaspard Monge, F67000 Strasbourg (France)
- Department of Organic Chemistry, University of Geneva, 30 quai Ernest Ansermet, CH‐1211 Geneva 4 (Switzerland) phone: +41‐22‐379‐61‐05 fax: +41‐22‐379‐32‐15
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19
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Kazane SA, Axup JY, Kim CH, Ciobanu M, Wold ED, Barluenga S, Hutchins BA, Schultz PG, Winssinger N, Smider VV. Self-assembled antibody multimers through peptide nucleic acid conjugation. J Am Chem Soc 2013; 135:340-6. [PMID: 23210862 PMCID: PMC3951380 DOI: 10.1021/ja309505c] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
With the recent clinical success of bispecific antibodies, a strategy to rapidly synthesize and evaluate bispecific or higher order multispecific molecules could facilitate the discovery of new therapeutic agents. Here, we show that unnatural amino acids (UAAs) with orthogonal chemical reactivity can be used to generate site-specific antibody-oligonucleotide conjugates. These constructs can then be self-assembled into multimeric complexes with defined composition, valency, and geometry. With this approach, we generated potent bispecific antibodies that recruit cytotoxic T lymphocytes to Her2 and CD20 positive cancer cells, as well as multimeric antibody fragments with enhanced activity. This strategy should accelerate the synthesis and in vitro characterization of antibody constructs with unique specificities and molecular architectures.
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Affiliation(s)
- Stephanie A. Kazane
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Jun Y Axup
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Chan Hyuk Kim
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Mihai Ciobanu
- Department of Chemistry, Institute for Science and Supramolecular Engineering, 8 allée Gaspard Monge, 67000 Strasbourg, France
| | - Erik D. Wold
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Sofia Barluenga
- Department of Chemistry, Institute for Science and Supramolecular Engineering, 8 allée Gaspard Monge, 67000 Strasbourg, France
| | - Benjamin A. Hutchins
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Peter G. Schultz
- Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
| | - Nicolas Winssinger
- Department of Chemistry, Institute for Science and Supramolecular Engineering, 8 allée Gaspard Monge, 67000 Strasbourg, France
- Department of Organic Chemistry, University of Geneva, Geneva CH-1211, Switzerland
| | - Vaughn V. Smider
- Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
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Ulrich S, Dumy P, Boturyn D, Renaudet O. Engineering of biomolecules for sensing and imaging applications. J Drug Deliv Sci Technol 2013. [DOI: 10.1016/s1773-2247(13)50001-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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21
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Detection of pre-mRNA splicing in vitro by an RNA-templated fluorogenic reaction. Bioorg Med Chem Lett 2012; 22:7248-51. [DOI: 10.1016/j.bmcl.2012.09.033] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2012] [Revised: 09/10/2012] [Accepted: 09/11/2012] [Indexed: 11/19/2022]
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22
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Chouikhi D, Ciobanu M, Zambaldo C, Duplan V, Barluenga S, Winssinger N. Expanding the scope of PNA-encoded synthesis (PES): Mtt-protected PNA fully orthogonal to fmoc chemistry and a broad array of robust diversity-generating reactions. Chemistry 2012; 18:12698-704. [PMID: 22915361 DOI: 10.1002/chem.201201337] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2012] [Revised: 06/15/2012] [Indexed: 01/11/2023]
Abstract
Nucleic acid-encoded libraries are emerging as an attractive and highly miniaturized format for the rapid identification of protein ligands. An important criterion in the synthesis of nucleic acid encoded libraries is the scope of reactions that can be used to introduce molecular diversity and devise divergent pathways for diversity-oriented synthesis (DOS). To date, the protecting group strategies that have been used in peptide nucleic acid (PNA) encoded synthesis (PES) have limited the choice of reactions used in the library synthesis to just a few prototypes. Herein, we describe the preparation of PNA monomers with a protecting group combination (Mtt/Boc) that is orthogonal to Fmoc-based synthesis and compatible with a large palette of reactions that have been productively used in DOS (palladium cross-couplings, metathesis, reductive amination, amidation, heterocycle formation, nucleophilic addition, conjugate additions, Pictet-Spengler cyclization). We incorporate γ-modifications in the PNA backbone that are known to enhance hybridization and solubility. We demonstrate the robustness of this strategy with a library synthesis that is characterized by MALDI MS analysis at every step.
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Affiliation(s)
- Dalila Chouikhi
- Institut de Science et Ingénierie Supramoléculaires, ISIS - UMR, Université de Strasbourg - CNRS, France
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23
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Winssinger N. DNA display of PNA-tagged ligands: a versatile strategy to screen libraries and control geometry of multidentate ligands. ARTIFICIAL DNA, PNA & XNA 2012; 3:105-8. [PMID: 22871882 PMCID: PMC3581508 DOI: 10.4161/adna.21108] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Over the past decade, several technologies have emerged to access nucleic acid-tagged libraries and select the fittest compound within such libraries. This perspective focuses on recent development with PNA-tagged small molecules displayed on DNA templates for screening purposes and to probe the optimal geometry in multivalent interactions.
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Affiliation(s)
- Nicolas Winssinger
- Institut de Science et Ingénierie Supramoléculaires, Université de Strasbourg, CNRS, Strasbourg, France.
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24
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Abstract
Enzymes are key molecules in signal-transduction pathways. However, only a small fraction of more than 500 human kinases, 300 human proteases and 200 human phosphatases is characterised so far. Peptide microarray based technologies for extremely efficient profiling of enzyme substrate specificity emerged in the last years. This technology reduces set-up time for HTS assays and allows the identification of downstream targets. Moreover, peptide microarrays enable optimisation of enzyme substrates. Focus of this review is on assay principles for measuring activities of kinases, phosphatases or proteases and on substrate identification/optimisation for kinases. Additionally, several examples for reliable identification of substrates for lysine methyl-transferases, histone deacetylases and SUMO-transferases are given. Finally, use of high-density peptide microarrays for the simultaneous profiling of kinase activities in complex biological samples like cell lysates or lysates of complete organisms is described. All published examples of peptide arrays used for enzyme profiling are summarised comprehensively.
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25
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Decoding a PNA encoded peptide library by PCR: the discovery of new cell surface receptor ligands. ACTA ACUST UNITED AC 2012; 18:1284-9. [PMID: 22035797 DOI: 10.1016/j.chembiol.2011.07.017] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2011] [Revised: 07/05/2011] [Accepted: 07/06/2011] [Indexed: 12/18/2022]
Abstract
The ability to screen and identify new ligands for cell surface receptors has been a long-standing goal as it might allow targeting of pharmaceutically relevant receptors, such as integrins or G protein coupled receptors. Here, we present a method to amplify hits from a library of PNA-tagged peptides. To this end, human cells, overexpressing either integrins or the CCR6 receptor, were treated with a 10,000 member PNA-encoded peptide library. Extraction of the PNA tags from the surface of the cells was followed by a PNA-tag to DNA translation and amplification enabling decoding of the tags via microarray hybridization. This approach to ligand discovery facilitates screening for differences in surface-receptor ligands and/or receptor expression between different cell types, and opens up a practical approach to PNA-tag amplification.
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26
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Yang J, Ma JF, Batten SR. Polyrotaxane metal–organic frameworks (PMOFs). Chem Commun (Camb) 2012; 48:7899-912. [DOI: 10.1039/c2cc33060a] [Citation(s) in RCA: 164] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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27
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Röthlingshöfer M, Gorska K, Winssinger N. Nucleic Acid Templated Uncaging of Fluorophores Using Ru-Catalyzed Photoreduction with Visible Light. Org Lett 2011; 14:482-5. [DOI: 10.1021/ol203029t] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Manuel Röthlingshöfer
- Institut de Science et Ingénierie Supramoléculaires (ISIS - UMR 7006), Université de Strasbourg - CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
| | - Katarzyna Gorska
- Institut de Science et Ingénierie Supramoléculaires (ISIS - UMR 7006), Université de Strasbourg - CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
| | - Nicolas Winssinger
- Institut de Science et Ingénierie Supramoléculaires (ISIS - UMR 7006), Université de Strasbourg - CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
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28
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Röthlingshöfer M, Gorska K, Winssinger N. Nucleic Acid-Templated Energy Transfer Leading to a Photorelease Reaction and its Application to a System Displaying a Nonlinear Response. J Am Chem Soc 2011; 133:18110-3. [DOI: 10.1021/ja2086504] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Manuel Röthlingshöfer
- Institut de Science et Ingénierie Supramoléculaires (ISIS − UMR 7006), Université de Strasbourg − CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
| | - Katarzyna Gorska
- Institut de Science et Ingénierie Supramoléculaires (ISIS − UMR 7006), Université de Strasbourg − CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
| | - Nicolas Winssinger
- Institut de Science et Ingénierie Supramoléculaires (ISIS − UMR 7006), Université de Strasbourg − CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
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Silverman SK. DNA as a versatile chemical component for catalysis, encoding, and stereocontrol. Angew Chem Int Ed Engl 2011; 49:7180-201. [PMID: 20669202 DOI: 10.1002/anie.200906345] [Citation(s) in RCA: 201] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
DNA (deoxyribonucleic acid) is the genetic material common to all of Earth's organisms. Our biological understanding of DNA is extensive and well-exploited. In recent years, chemists have begun to develop DNA for nonbiological applications in catalysis, encoding, and stereochemical control. This Review summarizes key advances in these three exciting research areas, each of which takes advantage of a different subset of DNA's useful chemical properties.
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Affiliation(s)
- Scott K Silverman
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA.
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31
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Gorska K, Manicardi A, Barluenga S, Winssinger N. DNA-templated release of functional molecules with an azide-reduction-triggered immolative linker. Chem Commun (Camb) 2011; 47:4364-6. [DOI: 10.1039/c1cc10222b] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
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32
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Svensen N, Díaz-Mochón JJ, Bradley M. Encoded peptide libraries and the discovery of new cell binding ligands. Chem Commun (Camb) 2011; 47:7638-40. [DOI: 10.1039/c1cc11668a] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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33
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34
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Gassman NR, Nelli JP, Dutta S, Kuhn A, Bonin K, Pianowski Z, Winssinger N, Guthold M, Macosko JC. Selection of bead-displayed, PNA-encoded chemicals. J Mol Recognit 2010; 23:414-22. [PMID: 19957300 DOI: 10.1002/jmr.1007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
The lack of efficient identification and isolation methods for specific molecular binders has fundamentally limited drug discovery. Here, we have developed a method to select peptide nucleic acid (PNA) encoded molecules with specific functional properties from combinatorially generated libraries. This method consists of three essential stages: (1) creation of a Lab-on-Bead library, a one-bead, one-sequence library that, in turn, displays a library of candidate molecules, (2) fluorescence microscopy-aided identification of single target-bound beads and the extraction--wet or dry--of these beads and their attached candidate molecules by a micropipette manipulator, and (3) identification of the target-binding candidate molecules via amplification and sequencing. This novel integration of techniques harnesses the sensitivity of DNA detection methods and the multiplexed and miniaturized nature of molecule screening to efficiently select and identify target-binding molecules from large nucleic acid encoded chemical libraries. Beyond its potential to accelerate assays currently used for the discovery of new drug candidates, its simple bead-based design allows for easy screening over a variety of prepared surfaces that can extend this technique's application to the discovery of diagnostic reagents and disease markers.
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Affiliation(s)
- Natalie R Gassman
- Department of Physics, Wake Forest University, Winston Salem, NC, USA
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35
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Silverman SK. DNA - eine vielseitige chemische Verbindung für die Katalyse, zur Kodierung und zur Stereokontrolle. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.200906345] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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36
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Chouikhi D, Barluenga S, Winssinger N. Clickable peptide nucleic acids (cPNA) with tunable affinity. Chem Commun (Camb) 2010; 46:5476-8. [PMID: 20571635 DOI: 10.1039/c0cc01081b] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Peptide nucleic acids (PNAs) are functional analogues of natural oligonucleotides. Herein, we report the synthesis of PNAs bearing a triazole in lieu of the amide bond assembled using a "click" cycloaddition, their hybridization properties as well as the DNA-templated coupling of the azide and alkyne PNA fragments.
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Affiliation(s)
- Dalila Chouikhi
- Institut de Science et Ingénierie Supramoléculaires (ISIS-UMR 7006)Université de Strasbourg-CNRS, 8 allée Gaspard Monge, F67000 Strasbourg, France
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37
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Vázquez O, Sánchez MI, Martínez-Costas J, Vázquez ME, Mascareñas JL. Bis-4-aminobenzamidines: Versatile, Fluorogenic A/T-Selective dsDNA Binders. Org Lett 2009; 12:216-9. [DOI: 10.1021/ol902501j] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Olalla Vázquez
- Departamento de Química Orgánica and Departamento de Bioquímica y Biología Molecular, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Mateo I. Sánchez
- Departamento de Química Orgánica and Departamento de Bioquímica y Biología Molecular, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - José Martínez-Costas
- Departamento de Química Orgánica and Departamento de Bioquímica y Biología Molecular, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - M. Eugenio Vázquez
- Departamento de Química Orgánica and Departamento de Bioquímica y Biología Molecular, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - José L. Mascareñas
- Departamento de Química Orgánica and Departamento de Bioquímica y Biología Molecular, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
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38
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Gorska K, Huang KT, Chaloin O, Winssinger N. DNA-templated homo- and heterodimerization of peptide nucleic acid encoded oligosaccharides that mimick the carbohydrate epitope of HIV. Angew Chem Int Ed Engl 2009; 48:7695-700. [PMID: 19774579 DOI: 10.1002/anie.200903328] [Citation(s) in RCA: 115] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Katarzyna Gorska
- Institut de Science et Ingénierie Supramoléculaires (ISIS), Université de Strasbourg-CNRS (UMR 7006), 8 allée Gaspard Monge, 67000 Strasbourg, France
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39
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Gorska K, Huang KT, Chaloin O, Winssinger N. DNA-Templated Homo- and Heterodimerization of Peptide Nucleic Acid Encoded Oligosaccharides that Mimick the Carbohydrate Epitope of HIV. Angew Chem Int Ed Engl 2009. [DOI: 10.1002/ange.200903328] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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40
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Neumann T, Gajria S, Tirrell M, Jaeger L. Reversible structural switching of a DNA-DDAB film. J Am Chem Soc 2009; 131:3440-1. [PMID: 19275252 DOI: 10.1021/ja809349m] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We describe the novel structure and behavior of a DNA-DDAB complex film cast from an organic solvent and exhibiting a structural switching transition as it is dried or wetted with water. The film was easily prepared by formation of a complex between the negatively charged phosphate groups of DNA and the positively charged headgroup of the surfactant DDAB. This complex was then purified, dried, dissolved in 2-propanol, and cast onto a glass slide to form a self-standing film by means of slow evaporation. While the structure of the dried film was found to be composed of single-stranded DNA and a monolayer of DDAB, upon hydration of the film, the structure switched to double-stranded DNA complexed to a bilayer of DDAB. We expect this phenomenon to serve as a useful model for the design of new responsive materials and programmable self-assembly.
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Affiliation(s)
- Thorsten Neumann
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, California 93106-9510, USA
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41
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Abstract
Enzymes are key molecules in signal transduction pathways. However, only a small fraction of more than 500 predicted human kinases, 250 proteases and 250 phosphatases is characterized so far. Peptide microarray-based technologies for extremely efficient profiling of enzyme substrate specificity emerged in the last years. Additionally, patterns of enzymatic activities could be used to fingerprint the status of cells or organisms. This technology reduces set-up time for HTS assays and allows the identification of downstream targets. Moreover, peptide microarrays enable optimization of enzyme substrates. A comprehensive overview regarding enzyme profiling using peptide microarrays is presented with special focus on assay principles.
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Affiliation(s)
- Alexandra Thiele
- Max Planck Research Unit for Enzymology of Protein Folding, Halle, Germany
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42
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Janssen PGA, Jabbari-Farouji S, Surin M, Vila X, Gielen JC, de Greef TFA, Vos MRJ, Bomans PHH, Sommerdijk NAJM, Christianen PCM, Leclère P, Lazzaroni R, van der Schoot P, Meijer EW, Schenning APHJ. Insights into Templated Supramolecular Polymerization: Binding of Naphthalene Derivatives to ssDNA Templates of Different Lengths. J Am Chem Soc 2008; 131:1222-31. [DOI: 10.1021/ja808075h] [Citation(s) in RCA: 82] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Pim G. A. Janssen
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Sara Jabbari-Farouji
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Mathieu Surin
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Xavier Vila
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Jeroen C. Gielen
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Tom F. A. de Greef
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Matthijn R. J. Vos
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Paul H. H. Bomans
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Nico A. J. M. Sommerdijk
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Peter C. M. Christianen
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Philippe Leclère
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Roberto Lazzaroni
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Paul van der Schoot
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - E. W. Meijer
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
| | - Albertus P. H. J. Schenning
- Laboratory for Macromolecular and Organic Chemistry, Group Theoretical and Polymer Physics, and Institute for Complex Molecular Systems, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Dutch Polymer Institute, P.O. Box 902, 5600 AX Eindhoven, The Netherlands, Laboratory for Chemistry of Novel Materials, University of Mons-Hainaut, B-7000 Mons, Belgium, and High Field Magnet Laboratory, Institute of Molecules and Materials, Radboud University Nijmegen, Toernooiveld 7,
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43
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Pothukanuri S, Pianowski Z, Winssinger N. Expanding the Scope and Orthogonality of PNA Synthesis. European J Org Chem 2008. [DOI: 10.1002/ejoc.200800141] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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