101
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Dadon Z, Wagner N, Alasibi S, Samiappan M, Mukherjee R, Ashkenasy G. Competition and Cooperation in Dynamic Replication Networks. Chemistry 2014; 21:648-54. [DOI: 10.1002/chem.201405195] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2014] [Indexed: 11/09/2022]
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102
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Herrmann A. Dynamic combinatorial/covalent chemistry: a tool to read, generate and modulate the bioactivity of compounds and compound mixtures. Chem Soc Rev 2014; 43:1899-933. [PMID: 24296754 DOI: 10.1039/c3cs60336a] [Citation(s) in RCA: 281] [Impact Index Per Article: 28.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Reversible covalent bond formation under thermodynamic control adds reactivity to self-assembled supramolecular systems, and is therefore an ideal tool to assess complexity of chemical and biological systems. Dynamic combinatorial/covalent chemistry (DCC) has been used to read structural information by selectively assembling receptors with the optimum molecular fit around a given template from a mixture of reversibly reacting building blocks. This technique allows access to efficient sensing devices and the generation of new biomolecules, such as small molecule receptor binders for drug discovery, but also larger biomimetic polymers and macromolecules with particular three-dimensional structural architectures. Adding a kinetic factor to a thermodynamically controlled equilibrium results in dynamic resolution and in self-sorting and self-replicating systems, all of which are of major importance in biological systems. Furthermore, the temporary modification of bioactive compounds by reversible combinatorial/covalent derivatisation allows control of their release and facilitates their transport across amphiphilic self-assembled systems such as artificial membranes or cell walls. The goal of this review is to give a conceptual overview of how the impact of DCC on supramolecular assemblies at different levels can allow us to understand, predict and modulate the complexity of biological systems.
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Affiliation(s)
- Andreas Herrmann
- Firmenich SA, Division Recherche et Développement, Route des Jeunes 1, B. P. 239, CH-1211 Genève 8, Switzerland.
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103
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Mahon CS, Fulton DA. Mimicking nature with synthetic macromolecules capable of recognition. Nat Chem 2014; 6:665-72. [PMID: 25054935 DOI: 10.1038/nchem.1994] [Citation(s) in RCA: 102] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2013] [Accepted: 05/30/2014] [Indexed: 02/06/2023]
Abstract
Nature has, through billions of years of evolution, assembled a multitude of polymeric macromolecules capable of exquisite molecular recognition. This functionality arises from the precise control exerted over their biosynthesis that results in key residues being anchored in the appropriate positions to interact with target substrates. Developing 'wholly synthetic' macromolecular analogues that can mimic this behaviour presents a considerable challenge to chemists, who lack the 'biological machinery' used in nature to assemble polymers with such precision. In addressing this challenge, familiar chemical concepts, such as combinatorial methods and supramolecular interactions, have been adapted for application in the macromolecular arena. Working from a limited set of residues, synthetic macromolecules have been produced that display surprisingly high binding affinities towards target proteins, even possessing useful in vivo activities. These observations are all the more surprising when one considers the heterogeneity inherent within these synthetic macromolecular receptors, and provoke intriguing questions regarding our assumptions about the design of receptors.
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Affiliation(s)
- Clare S Mahon
- Chemical Nanoscience Laboratory, School of Chemistry, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
| | - David A Fulton
- Chemical Nanoscience Laboratory, School of Chemistry, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
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104
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One-pot four-component synthesis of 4-hydrazinothiazoles: novel scaffolds for drug discovery. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2014.08.033] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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105
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106
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Biased and unbiased strategies to identify biologically active small molecules. Bioorg Med Chem 2014; 22:4474-89. [DOI: 10.1016/j.bmc.2014.04.019] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2014] [Revised: 04/03/2014] [Accepted: 04/10/2014] [Indexed: 12/20/2022]
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107
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Vantomme G, Jiang S, Lehn JM. Adaptation in Constitutional Dynamic Libraries and Networks, Switching between Orthogonal Metalloselection and Photoselection Processes. J Am Chem Soc 2014; 136:9509-18. [DOI: 10.1021/ja504813r] [Citation(s) in RCA: 94] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Ghislaine Vantomme
- Laboratoire de Chimie Supramoléculaire,
Institut de Science et d’Ingénierie Supramoléculaires
(ISIS), Université de Strasbourg, 8 Allée Gaspard Monge, 67000 Strasbourg, France
| | - Shimei Jiang
- Laboratoire de Chimie Supramoléculaire,
Institut de Science et d’Ingénierie Supramoléculaires
(ISIS), Université de Strasbourg, 8 Allée Gaspard Monge, 67000 Strasbourg, France
| | - Jean-Marie Lehn
- Laboratoire de Chimie Supramoléculaire,
Institut de Science et d’Ingénierie Supramoléculaires
(ISIS), Université de Strasbourg, 8 Allée Gaspard Monge, 67000 Strasbourg, France
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108
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Milroy LG, Grossmann TN, Hennig S, Brunsveld L, Ottmann C. Modulators of Protein–Protein Interactions. Chem Rev 2014; 114:4695-748. [DOI: 10.1021/cr400698c] [Citation(s) in RCA: 352] [Impact Index Per Article: 35.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Lech-Gustav Milroy
- Laboratory
of Chemical Biology and Institute of Complex Molecular Systems, Department
of Biomedical Engineering, Technische Universiteit Eindhoven, Den Dolech
2, 5612 AZ Eindhoven, The Netherlands
| | - Tom N. Grossmann
- Chemical Genomics Centre of the Max Planck Society, Otto-Hahn Straße 15, 44227 Dortmund, Germany
- Department
of Chemistry and Chemical Biology, Technical University Dortmund, Otto-Hahn-Strasse 6, 44227 Dortmund, Germany
| | - Sven Hennig
- Chemical Genomics Centre of the Max Planck Society, Otto-Hahn Straße 15, 44227 Dortmund, Germany
| | - Luc Brunsveld
- Laboratory
of Chemical Biology and Institute of Complex Molecular Systems, Department
of Biomedical Engineering, Technische Universiteit Eindhoven, Den Dolech
2, 5612 AZ Eindhoven, The Netherlands
| | - Christian Ottmann
- Laboratory
of Chemical Biology and Institute of Complex Molecular Systems, Department
of Biomedical Engineering, Technische Universiteit Eindhoven, Den Dolech
2, 5612 AZ Eindhoven, The Netherlands
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109
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De Bo G, Kuschel S, Leigh DA, Lewandowski B, Papmeyer M, Ward JW. Efficient assembly of threaded molecular machines for sequence-specific synthesis. J Am Chem Soc 2014; 136:5811-4. [PMID: 24678971 DOI: 10.1021/ja5022415] [Citation(s) in RCA: 110] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
We report on an improved strategy for the preparation of artificial molecular machines that can pick up and assemble reactive groups in sequence by traveling along a track. In the new approach a preformed rotaxane synthon is attached to the end of an otherwise fully formed strand of building blocks. This "rotaxane-capping" protocol is significantly more efficient than the "final-step-threading" method employed previously and enables the synthesis of threaded molecular machines that operate on extended oligomer, and potentially polymer, tracks. The methodology is exemplified through the preparation of a machine that adds four amino acid building blocks from a strand in sequence, featuring up to 20-membered ring native chemical ligation transition states.
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Affiliation(s)
- Guillaume De Bo
- School of Chemistry, University of Manchester , Oxford Road, Manchester, M13 9PL United Kingdom
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110
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Variable gelation time and stiffness of low-molecular-weight hydrogels through catalytic control over self-assembly. Nat Protoc 2014; 9:977-88. [DOI: 10.1038/nprot.2014.055] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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111
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Olive AGL, Abdullah NH, Ziemecka I, Mendes E, Eelkema R, van Esch JH. Spatial and Directional Control over Self-Assembly Using Catalytic Micropatterned Surfaces. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201310776] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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112
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Olive AGL, Abdullah NH, Ziemecka I, Mendes E, Eelkema R, van Esch JH. Spatial and directional control over self-assembly using catalytic micropatterned surfaces. Angew Chem Int Ed Engl 2014; 53:4132-6. [PMID: 24615796 DOI: 10.1002/anie.201310776] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2013] [Indexed: 01/03/2023]
Abstract
Catalyst-assisted self-assembly is widespread in nature to achieve spatial control over structure formation. Reported herein is the formation of hydrogel micropatterns on catalytic surfaces. Gelator precursors react on catalytic sites to form building blocks which can self-assemble into nanofibers. The resulting structures preferentially grow where the catalyst is present. Not only is a first level of organization, allowing the construction of hydrogel micropatterns, achieved but a second level of organization is observed among fibers. Indeed, fibers grow with their main axis perpendicular to the substrate. This feature is directly linked to a unique mechanism of fiber formation for a synthetic system. Building blocks are added to fibers in a confined space at the solid-liquid interface.
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Affiliation(s)
- Alexandre G L Olive
- Advanced Soft Matter Group, Department of Chemical Engineering, Delft University of Technology, Julianalaan 136, 2628 BL Delft (The Netherlands)
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113
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Mondal M, Radeva N, Köster H, Park A, Potamitis C, Zervou M, Klebe G, Hirsch AKH. Strukturbasiertes Design von Hemmstoffen der Aspartylprotease Endothiapepsin mittels dynamischer kombinatorischer Chemie. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201309682] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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114
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Mondal M, Radeva N, Köster H, Park A, Potamitis C, Zervou M, Klebe G, Hirsch AKH. Structure-based design of inhibitors of the aspartic protease endothiapepsin by exploiting dynamic combinatorial chemistry. Angew Chem Int Ed Engl 2014; 53:3259-63. [PMID: 24532096 DOI: 10.1002/anie.201309682] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2013] [Indexed: 12/19/2022]
Abstract
Structure-based design (SBD) can be used for the design and/or optimization of new inhibitors for a biological target. Whereas de novo SBD is rarely used, most reports on SBD are dealing with the optimization of an initial hit. Dynamic combinatorial chemistry (DCC) has emerged as a powerful strategy to identify bioactive ligands given that it enables the target to direct the synthesis of its strongest binder. We have designed a library of potential inhibitors (acylhydrazones) generated from five aldehydes and five hydrazides and used DCC to identify the best binder(s). After addition of the aspartic protease endothiapepsin, we characterized the protein-bound library member(s) by saturation-transfer difference NMR spectroscopy. Cocrystallization experiments validated the predicted binding mode of the two most potent inhibitors, thus demonstrating that the combination of de novo SBD and DCC constitutes an efficient starting point for hit identification and optimization.
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Affiliation(s)
- Milon Mondal
- Stratingh Institute for Chemistry, University of Groningen, Nijenborgh 7, 9747 AG Groningen (The Netherlands) http://www.rug.nl/research/bio-organic-chemistry/hirsch/
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115
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McKinnon DD, Domaille DW, Cha JN, Anseth KS. Biophysically defined and cytocompatible covalently adaptable networks as viscoelastic 3D cell culture systems. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2014; 26:865-72. [PMID: 24127293 PMCID: PMC4582033 DOI: 10.1002/adma.201303680] [Citation(s) in RCA: 281] [Impact Index Per Article: 28.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2013] [Revised: 08/23/2013] [Indexed: 05/19/2023]
Abstract
Presented here is a cytocompatible covalently adaptable hydrogel uniquely capable of mimicking the complex biophysical properties of native tissue and enabling natural cell functions without matrix degradation. Demonstrated is both the ability to control elastic modulus and stress relaxation time constants by more than an order of magnitude while predicting these values based on fundamental theoretical understanding and the simulation of muscle tissue and the encapsulation of myoblasts.
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Affiliation(s)
- Daniel D. McKinnon
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
- BioFrontiers Institute, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
| | - Dylan W. Domaille
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
| | - Jennifer N. Cha
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
| | - Kristi S. Anseth
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
- BioFrontiers Institute, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303
- Howard Hughes Medical Institute, University of Colorado Boulder, Jennie Smoly Caruthers Biotechnology Building, 3415 Colorado Ave, 596 UCB, Boulder, CO, 80303, , Tel: 303–735–5336, Fax: 303–492–4341
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116
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Ji A, Ren W, Ai HW. A highly efficient oxidative condensation reaction for selective protein conjugation. Chem Commun (Camb) 2014; 50:7469-72. [DOI: 10.1039/c4cc01551g] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
A novel oxidative conjugation reaction between aryl diamine and aldehyde was used to site-specifically label a protein.
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Affiliation(s)
- Ao Ji
- Department of Chemistry
- University of California Riverside
- Riverside, USA
| | - Wei Ren
- Department of Chemistry
- University of California Riverside
- Riverside, USA
| | - Hui-wang Ai
- Department of Chemistry
- University of California Riverside
- Riverside, USA
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117
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Ulrich S, Dumy P. Probing secondary interactions in biomolecular recognition by dynamic combinatorial chemistry. Chem Commun (Camb) 2014; 50:5810-25. [DOI: 10.1039/c4cc00263f] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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118
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Leigh DA, Lewandowska U, Lewandowski B, Wilson MR. Synthetic Molecular Walkers. MOLECULAR MACHINES AND MOTORS 2014; 354:111-38. [DOI: 10.1007/128_2014_546] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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119
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Rasmussen B, Sørensen A, Gotfredsen H, Pittelkow M. Dynamic combinatorial chemistry with diselenides and disulfides in water. Chem Commun (Camb) 2014; 50:3716-8. [DOI: 10.1039/c4cc00523f] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Diselenide exchange is introduced as a reversible reaction in dynamic combinatorial chemistry in water at physiological pH.
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Affiliation(s)
- Brian Rasmussen
- Department of Chemistry
- University of Copenhagen
- DK-2100 Copenhagen, Denmark
| | - Anne Sørensen
- Department of Chemistry
- University of Copenhagen
- DK-2100 Copenhagen, Denmark
| | - Henrik Gotfredsen
- Department of Chemistry
- University of Copenhagen
- DK-2100 Copenhagen, Denmark
| | - Michael Pittelkow
- Department of Chemistry
- University of Copenhagen
- DK-2100 Copenhagen, Denmark
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120
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Ruiz-Mirazo K, Briones C, de la Escosura A. Prebiotic Systems Chemistry: New Perspectives for the Origins of Life. Chem Rev 2013; 114:285-366. [DOI: 10.1021/cr2004844] [Citation(s) in RCA: 563] [Impact Index Per Article: 51.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Kepa Ruiz-Mirazo
- Biophysics
Unit (CSIC-UPV/EHU), Leioa, and Department of Logic and Philosophy
of Science, University of the Basque Country, Avenida de Tolosa 70, 20080 Donostia−San Sebastián, Spain
| | - Carlos Briones
- Department
of Molecular Evolution, Centro de Astrobiología (CSIC−INTA, associated to the NASA Astrobiology Institute), Carretera de Ajalvir, Km 4, 28850 Torrejón de Ardoz, Madrid, Spain
| | - Andrés de la Escosura
- Organic
Chemistry Department, Universidad Autónoma de Madrid, Cantoblanco, 28049 Madrid, Spain
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121
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Discovering Echinococcus granulosus thioredoxin glutathione reductase inhibitors through site-specific dynamic combinatorial chemistry. Mol Divers 2013; 18:1-12. [PMID: 24136658 DOI: 10.1007/s11030-013-9485-3] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2013] [Accepted: 09/26/2013] [Indexed: 10/26/2022]
Abstract
In this study, we report a strategy using dynamic combinatorial chemistry for targeting the thioredoxin (Trx)-reductase catalytic site on Trx glutathione reductase (TGR), a pyridine nucleotide thiol-disulfide oxido-reductase. We chose Echinococcus granulosus TGR since it is a bottleneck enzyme of platyhelminth parasites and a validated pharmacological target. A dynamic combinatorial library (DCL) was constructed based on thiol-disulfide reversible exchange. We demonstrate the use of 5-thio-2-nitrobenzoic acid (TNB) as a non-covalent anchor fragment in a DCL templated by E. granulosus TGR. The heterodimer of TNB and bisthiazolidine (2af) was identified, upon library analysis by HPLC (IC50 = 24 μM). Furthermore, 14 analogs were synthetically prepared and evaluated against TGR. This allowed the study of a structure-activity relationship and the identification of a disulfide TNB-tricyclic bisthiazolidine (2aj) as the best enzyme inhibitor in these series, with an IC50 = 24 μM. Thus, our results validate the use of DCL for targeting thiol-disulfide oxido-reductases.
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122
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Wang C, Yuan J, Li X, Wang Z, Huang L. Sulfonyl hydrazine-functionalized polymer as a specific capturer of reducing glycans from complex samples for high-throughput analysis by electrospray ionization mass spectrometry. Analyst 2013; 138:5344-56. [PMID: 23875183 DOI: 10.1039/c3an00931a] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Qualitative and quantitative studies of glycosylation patterns of various biologically important proteins represent a key field for the understanding of their complex structure-function relationships. However, the analysis of glycoprotein glycans is usually undermined by tedious sample processing steps prior to detection, including deproteination, desalting and removal of some other non-glycan impurities, which results in considerable sample loss and increased difficulty of quantitative analysis. Herein we report a facile and versatile method for the quantitative isolation of reducing glycans from complex samples using sulfonyl hydrazine-functionalized polystyrene (SHPS) beads, namely the SHPS-based glycan capturing procedure. This method allows the chemoselective and efficient condensation of the aldehyde group of reducing glycans with the active sulfonyl hydrazine group of SHPS beads under anhydrous conditions, resulting in the formation of sulfonyl hydrazone conjugates. The non-glycan components in samples, such as proteins, salts and some other impurities, can be completely removed by washing the sulfonyl hydrazone conjugates. Regeneration of the reducing glycans can be performed via mild hydrolysis of the washed sulfonyl hydrazone conjugates. This procedure is compatible with almost all the current techniques for the derivatization or detection of reducing glycans. We have obtained essential data for this method, including optimized reaction conditions, linearity and reproducibility for glycan quantitation, as well as a final glycan recovery ratio. Moreover, mass spectrometric analysis of the glycans from some complex biological samples, including milk, human blood plasma and fetal bovine serum, was achieved, demonstrating good applicability of this novel procedure.
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Affiliation(s)
- Chengjian Wang
- Educational Ministry Key Laboratory of Resource Biology and Biotechnology in Western China, College of Life Science, Northwest University, Xi'an 710069, China
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123
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Haney CM, Horne WS. Oxime side-chain cross-links in an α-helical coiled-coil protein: structure, thermodynamics, and folding-templated synthesis of bicyclic species. Chemistry 2013; 19:11342-51. [PMID: 23843311 DOI: 10.1002/chem.201300506] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2013] [Indexed: 01/11/2023]
Abstract
Covalent side-chain cross-links are a versatile method to control peptide folding, particularly when α-helical secondary structure is the target. Here, we examine the application of oxime bridges, formed by the chemoselective reaction between aminooxy and aldehyde side chains, for the stabilization of a helical peptide involved in a protein-protein complex. A series of sequence variants of the dimeric coiled coil GCN4-p1 bearing oxime bridges at solvent-exposed positions were prepared and biophysically characterized. Triggered unmasking of a side-chain aldehyde in situ and subsequent cyclization proceed rapidly and cleanly at pH 7 in the folded protein complex. Comparison of folding thermodynamics among a series of different oxime bridges show that the cross links are consistently stabilizing to the coiled coil, with the extent of stabilization sensitive to the exact size and structure of the macrocycle. X-ray crystallographic analysis of a coiled coil with the best cross link in place and a second structure of its linear precursor show how the bridge is accommodated into an α-helix. Preparation of a bicyclic oligomer by simultaneous formation of two linkages in situ demonstrates the potential use of triggered oxime formation to both trap and stabilize a particular peptide folded conformation in the bound state.
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Affiliation(s)
- Conor M Haney
- Department of Chemistry, University of Pittsburgh, 219 Parkman Ave., Pittsburgh, PA 15260, USA
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124
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Li J, Nowak P, Otto S. Dynamic Combinatorial Libraries: From Exploring Molecular Recognition to Systems Chemistry. J Am Chem Soc 2013; 135:9222-39. [DOI: 10.1021/ja402586c] [Citation(s) in RCA: 353] [Impact Index Per Article: 32.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Jianwei Li
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747
AG Groningen, The Netherlands
| | - Piotr Nowak
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747
AG Groningen, The Netherlands
| | - Sijbren Otto
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747
AG Groningen, The Netherlands
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125
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Boekhoven J, Poolman JM, Maity C, Li F, van der Mee L, Minkenberg CB, Mendes E, van Esch JH, Eelkema R. Catalytic control over supramolecular gel formation. Nat Chem 2013; 5:433-7. [PMID: 23609096 DOI: 10.1038/nchem.1617] [Citation(s) in RCA: 212] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2012] [Accepted: 02/27/2013] [Indexed: 12/19/2022]
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126
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Hu X, Li H, Luo S, Liu T, Jiang Y, Liu S. Thiol and pH dual-responsive dynamic covalent shell cross-linked micelles for triggered release of chemotherapeutic drugs. Polym Chem 2013. [DOI: 10.1039/c2py20701j] [Citation(s) in RCA: 105] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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127
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Yang S, Zhang H. Solid-phase glycan isolation for glycomics analysis. Proteomics Clin Appl 2012; 6:596-608. [PMID: 23090885 PMCID: PMC3674833 DOI: 10.1002/prca.201200045] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2012] [Revised: 09/11/2012] [Accepted: 09/20/2012] [Indexed: 12/25/2022]
Abstract
Glycosylation is one of the most significant protein PTMs. The biological activities of proteins are dramatically changed by the glycans associated with them. Thus, structural analysis of the glycans of glycoproteins in complex biological or clinical samples is critical in correlation with the functions of glycans with diseases. Profiling of glycans by HPLC-MS is a commonly used technique in analyzing glycan structures and quantifying their relative abundance in different biological systems. Methods relied on MS require isolation of glycans from negligible salts and other contaminant ions since salts and ions may interfere with the glycans, resulting in poor glycan ionization. To accomplish those objectives, glycan isolation and clean-up methods including SPE, liquid-phase extraction, chromatography, and electrophoresis have been developed. Traditionally, glycans are isolated from proteins or peptides using a combination of hydrophobic and hydrophilic columns: proteins and peptides remain on hydrophobic absorbent while glycans, salts, and other hydrophilic reagents are collected as flowthrough. The glycans in the flowthrough are then purified through graphite-activated carbon column by hydrophilic interaction LC. Yet, the drawback in these affinity-based approaches is nonspecific binding. As a result, chemical methods by hydrazide or oxime have been developed for solid-phase isolation of glycans with high specificity and yield. Combined with high-resolution MS, specific glycan isolation techniques provide tremendous potentials as useful tools for glycomics analysis.
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Affiliation(s)
- Shuang Yang
- Department of Pathology, School of Medicine, Johns Hopkins University, Baltimore, MD 21231, USA
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128
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Siegel D. Applications of reversible covalent chemistry in analytical sample preparation. Analyst 2012; 137:5457-82. [PMID: 23013801 DOI: 10.1039/c2an35697j] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Reversible covalent chemistry (RCC) adds another dimension to commonly used sample preparation techniques like solid-phase extraction (SPE), solid-phase microextraction (SPME), molecular imprinted polymers (MIPs) or immuno-affinity cleanup (IAC): chemical selectivity. By selecting analytes according to their covalent reactivity, sample complexity can be reduced significantly, resulting in enhanced analytical performance for low-abundance target analytes. This review gives a comprehensive overview of the applications of RCC in analytical sample preparation. The major reactions covered include reversible boronic ester formation, thiol-disulfide exchange and reversible hydrazone formation, targeting analyte groups like diols (sugars, glycoproteins and glycopeptides, catechols), thiols (cysteinyl-proteins and cysteinyl-peptides) and carbonyls (carbonylated proteins, mycotoxins). Their applications range from low abundance proteomics to reversible protein/peptide labelling to antibody chromatography to quantitative and qualitative food analysis. In discussing the potential of RCC, a special focus is on the conditions and restrictions of the utilized reaction chemistry.
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Affiliation(s)
- David Siegel
- BAM Federal Institute for Materials Research and Testing, Richard-Willstätter-Str 11, 12489 Berlin, Germany.
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129
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Clipson AJ, Bhat VT, McNae I, Caniard AM, Campopiano DJ, Greaney MF. Bivalent enzyme inhibitors discovered using dynamic covalent chemistry. Chemistry 2012; 18:10562-70. [PMID: 22782854 DOI: 10.1002/chem.201201507] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2012] [Indexed: 12/25/2022]
Abstract
A bivalent dynamic covalent chemistry (DCC) system has been designed to selectively target members of the homodimeric glutathione-S-transferase (GST) enzyme family. The dynamic covalent libraries (DCLs) use aniline-catalysed acylhydrazone exchange between bivalent hydrazides and glutathione-conjugated aldehydes and the bis-hydrazides act as linkers to bridge between each glutathione binding site. The resultant DCLs were found to be compatible and highly responsive to templating with different GST isozymes, with the best results coming from the M and Schistosoma japonicum (Sj) class of GSTs, targets in cancer and tropical disease, respectively. The approach yielded compounds with selective, nanomolar affinity (K(i) =61 nM for mGSTM1-1) and demonstrates that DCC can be used to simultaneously interrogate binding sites on different subunits of a dimeric protein.
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Affiliation(s)
- Alexandra J Clipson
- School of Chemistry, University of Edinburgh, King's Buildings, West Mains Rd., Edinburgh, UK
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130
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Advancing cancer drug discovery towards more agile development of targeted combination therapies. Future Med Chem 2012; 4:87-105. [PMID: 22168166 DOI: 10.4155/fmc.11.169] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Current drug-discovery strategies are typically 'target-centric' and are based upon high-throughput screening of large chemical libraries against nominated targets and a selection of lead compounds with optimized 'on-target' potency and selectivity profiles. However, high attrition of targeted agents in clinical development suggest that combinations of targeted agents will be most effective in treating solid tumors if the biological networks that permit cancer cells to subvert monotherapies are identified and retargeted. Conventional drug-discovery and development strategies are suboptimal for the rational design and development of novel drug combinations. In this article, we highlight a series of emerging technologies supporting a less reductionist, more agile, drug-discovery and development approach for the rational design, validation, prioritization and clinical development of novel drug combinations.
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131
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132
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Deng G, Li F, Yu H, Liu F, Liu C, Sun W, Jiang H, Chen Y. Dynamic Hydrogels with an Environmental Adaptive Self-Healing Ability and Dual Responsive Sol-Gel Transitions. ACS Macro Lett 2012; 1:275-279. [PMID: 35578522 DOI: 10.1021/mz200195n] [Citation(s) in RCA: 389] [Impact Index Per Article: 32.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Dynamic polymer hydrogels with an environmental adaptive self-healing ability and dual responsive sol-gel transitions were prepared by combining acylhydrazone and disulfide bonds together in the same system. The hydrogel can automatically repair damage to it under both acidic (pH 3 and 6) and basic (pH 9) conditions through acylhydrazone exchange or disulfide exchange reactions. However, the hydrogel is not self-healable at pH 7 because both bonds are kinetically locked, whereas the hydrogel gains self-healing ability by accelerating acylhydrazone exchange with the help of catalytic aniline. All of the self-healing processes are demonstrated to be effective without an external stimulus at room temperature in air. The hydrogel also displays unique reversible sol-gel transitions in response to both pH (HCl/triethylamine) and redox (DTT/H2O2) triggers.
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Affiliation(s)
- Guohua Deng
- School of Chemistry and Chemical
Engineering, South China University of Technology, Guangzhou 510640, P. R. China
| | - Fuya Li
- School of Chemistry and Chemical
Engineering, South China University of Technology, Guangzhou 510640, P. R. China
| | - Hongxia Yu
- School of Chemistry and Chemical
Engineering, South China University of Technology, Guangzhou 510640, P. R. China
| | - Fuyong Liu
- State Key Laboratory of Polymer
Physics and Chemistry, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Chenyang Liu
- State Key Laboratory of Polymer
Physics and Chemistry, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Weixiang Sun
- School of Chemistry and Chemical
Engineering, South China University of Technology, Guangzhou 510640, P. R. China
| | - Huanfeng Jiang
- School of Chemistry and Chemical
Engineering, South China University of Technology, Guangzhou 510640, P. R. China
| | - Yongming Chen
- State Key Laboratory of Polymer
Physics and Chemistry, Institute of Chemistry, The Chinese Academy of Sciences, Beijing 100190, P. R. China
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133
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Yang SJ, Zhang H. Glycan analysis by reversible reaction to hydrazide beads and mass spectrometry. Anal Chem 2012; 84:2232-8. [PMID: 22304307 DOI: 10.1021/ac202769k] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Investigation into glycoproteins and their associated glycans is the key to understanding the function of glycoproteins in biological pathways and disease development. Current methods for glycan analysis are generally based on multiple preparation processes to separate glycans from proteins and other molecules prior to analysis. During the multistep purification processes, glycans are continuously lost and the procedure increases the difficulty for accurate quantitative analysis of glycans. Here we describe the development of a novel technique, which uses hydrazide beads to capture glycans. It is based on the conjugation of glycans to hydrazide beads through the formation of reversible hydrazone, washing out unbound nonglycans, then releasing captured glycans by acids. The results showed that the glycans were able to be isolated from concatenate peptides by using hydrazide beads. This technique was also applied to the analysis of glycans from sera sample. The integrated capture-release on the solid-phase simplifies the procedure for glycan preparation from a complex mixture and can be a powerful tool for glycan analysis.
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Affiliation(s)
- Shuang J Yang
- Department of Pathology, Johns Hopkins University, Baltimore, Maryland 21231, USA
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134
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Gromova AV, Ciszewski JM, Miller BL. Ternary resin-bound Dynamic Combinatorial Chemistry. Chem Commun (Camb) 2012; 48:2131-3. [PMID: 22240966 DOI: 10.1039/c2cc17192a] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
The ability to carry out simultaneous orthogonal exchange chemistries has opened new opportunities for increasing the numerical and structural diversity accessible to Dynamic Combinatorial Chemistry. We present proof-of-concept experiments demonstrating this concept is transferrable to resin-bound DCC, facilitating the generation and analysis of libraries with greater structural diversity.
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Affiliation(s)
- Anna V Gromova
- Department of Dermatology, University of Rochester Medical Center, Rochester, New York, USA
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135
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Dadon Z, Samiappan M, Wagner N, Ashkenasy G. Chemical and light triggering of peptide networks under partial thermodynamic control. Chem Commun (Camb) 2012; 48:1419-21. [DOI: 10.1039/c1cc14301h] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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136
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Lin J, Surin M, Beljonne D, Lou X, van Dongen JLJ, Schenning APHJ. On the mechanism of dynamic polymerization via recycled ss-DNA templated assembly of non-natural bases. Chem Sci 2012. [DOI: 10.1039/c2sc20389h] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
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137
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Martínez-Castañeda Á, Rodríguez-Solla H, Concellón C, del Amo V. TBD/Al2O3: a novel catalytic system for dynamic intermolecular aldol reactions that exhibit complex system behaviour. Org Biomol Chem 2012; 10:1976-81. [DOI: 10.1039/c2ob06648c] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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138
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Schmidt MA, Eastgate MD. Regioselective synthesis of 1,4-disubstituted imidazoles. Org Biomol Chem 2012; 10:1079-87. [DOI: 10.1039/c1ob06690k] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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139
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Blanden AR, Mukherjee K, Dilek O, Loew M, Bane SL. 4-aminophenylalanine as a biocompatible nucleophilic catalyst for hydrazone ligations at low temperature and neutral pH. Bioconjug Chem 2011; 22:1954-61. [PMID: 21932849 DOI: 10.1021/bc2001566] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Hydrazone formation and similar reactions are highly versatile and specific, but their application to biological systems has been limited by their characteristically slow reaction kinetics at neutral pH. Catalysis of these reactions through imine formation with aromatic amines such as aniline has broadened the applicability of these reactions to biomolecular labeling. High concentrations of the catalyst are necessary, which may be incompatible with the native structure of certain proteins. In this study, we investigated the utility of 4-aminophenylalanine (4a-Phe) as a catalyst for these reactions. We find that 4a-Phe is nearly as effective as aniline in catalyzing hydrazone formation between the reactive amino acid 3-formyltyrosine (3f-Tyr) and hydrazine-containing fluorophores, both free in solution and incorporated into the protein tubulin. The catalyst 4a-Phe maintains ∼70% of the catalytic efficacy of aniline and is less detrimental to the native structure of tubulin. Examination of the temperature dependence of imine formation between 3f-Tyr and 4a-Phe shows an increase in imine concentration accompanying a decrease in temperature, confirming the exothermic nature of the equilibrium reaction. Interestingly, decreasing the temperature of the 4a-Phe-catalyzed hydrazone reaction between 3f-Tyr and the fluorophore 7-hydrazinyl-4-methylcoumarin increases the overall rate of the reaction. This result indicates that the temperature dependence of the catalyst-aldehyde equilibrium is greater than the temperature dependence of the rate constant for hydrazone formation from this intermediate, and that the rate of hydrazone formation a direct function of the concentration of the intermediate imine. These results provide a platform for conducting nucleophilic catalysis under conditions that are more compatible with biomolecular targets than previously demonstrated, thereby expanding the utility of hydrazone ligations in biological systems.
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Affiliation(s)
- Adam R Blanden
- Department of Chemistry, Binghamton University, Binghamton, New York 13902, United States
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140
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141
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Lin Z, Emge TJ, Warmuth R. Multicomponent assembly of cavitand-based polyacylhydrazone nanocapsules. Chemistry 2011; 17:9395-405. [PMID: 21735498 DOI: 10.1002/chem.201100527] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2011] [Indexed: 01/09/2023]
Abstract
The thermodynamically controlled syntheses of different di-, tetra-, and hexacavitand polyacylhydrazone nanocapsules are reported. [2+4]-, [4+8]-, and [6+12]-nanocapsules assemble upon reacting a tetraformyl cavitand with two equivalents of isophthalic dihydrazide, or terephthalic dihydrazide in the presence of trifluoroacetic acid, whereby the building blocks are linked together through 8, 16, or 24 newly formed acylhydrazone bonds. Futhermore, the reaction of the tetraformylcavitands with different trigonal planar trihydrazides, simultaneously leads to the formation of [2+4]- and [6+8]-nanocapsules in varying ratios that depend on the cavitand to trihydrazide ratio and the nature of the cavitand and trihydrazide building blocks. The product ratios are rationalized with the different conformational strain of the acylhydrazone linkages in these nanocapsules. Diffusion NMR experiments with the hexacavitand polyacylhydrazone nanocapsules yield solvodynamic radii that range from 1.6 to 2.5 nm, consistent with estimates from force field calculations, and support, that these capsules have solvent filled, spherical interiors, the sizes of which approaches those of smaller proteins.
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Affiliation(s)
- Zhihua Lin
- Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854, USA
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142
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Beeren SR, Pittelkow M, Sanders JKM. From static to dynamic: escaping kinetic traps in hydrazone-based dynamic combinatorial libraries. Chem Commun (Camb) 2011; 47:7359-61. [PMID: 21643569 DOI: 10.1039/c1cc12268a] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Thermodynamic control over kinetically-trapped mixtures of hydrazone-based macrocycles is achieved by addition of an aromatic monohydrazide to generate dynamic combinatorial libraries (DCLs) of linear and macrocyclic oligomers.
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Affiliation(s)
- Sophie R Beeren
- University Chemical Laboratory, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
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143
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Beeren SR, Sanders JKM. Discovery of linear receptors for multiple dihydrogen phosphate ions using dynamic combinatorial chemistry. J Am Chem Soc 2011; 133:3804-7. [PMID: 21361379 DOI: 10.1021/ja200130h] [Citation(s) in RCA: 87] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
We describe the use of dynamic combinatorial chemistry to discover a new series of linear hydrazone-based receptors that bind multiple dihydrogen phosphate ions. Through the use of a template-driven, selection-based approach to receptor synthesis, dynamic combinatorial chemistry allows for the identification of unexpected host structures and binding motifs. Notably, we observed the unprecedented selection of these linear receptors in preference to competing macrocyclic hosts. Furthermore, linear receptors containing up to nine building blocks and three different building blocks were amplified in the dynamic combinatorial library. The receptors were formed using a dihydrazide building block based on an amino acid-disubstituted ferrocene scaffold. A detailed study of the linear pentamer revealed that it forms a helical ditopic receptor that employs four acylhydrazone hydrogen-bond donor motifs to cooperatively bind two dihydrogen phosphate ions.
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Affiliation(s)
- Sophie R Beeren
- University Chemical Laboratory, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
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144
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Roy L, Case MA. Recursively Enriched Dynamic Combinatorial Libraries for the Self-Selection of Optimally Stable Proteins. J Phys Chem B 2011; 115:2454-64. [DOI: 10.1021/jp111652n] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Liton Roy
- Department of Chemistry, The University of Vermont, Burlington, Vermont 05405,
United States
| | - Martin A. Case
- Department of Chemistry, The University of Vermont, Burlington, Vermont 05405,
United States
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145
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Sturm M, Leitner A, Lindner W. Development of an indole-based chemically cleavable linker concept for immobilizing bait compounds for protein pull-down experiments. Bioconjug Chem 2011; 22:211-7. [PMID: 21247093 DOI: 10.1021/bc100330a] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
A novel linker chemistry based on a malondialdehyde-indole condensation reaction has been developed for the affinity-independent elution of targeted protein pull-downs. Previously developed in our lab for the tagging of tryptophan residues on proteins or peptides, the concept was extended for the design of a chemically cleavable linker system. Target molecules for interaction studies are immobilized on a solid support including the linker scaffold, and a typical pull-down experiment is carried out. After purification, the linker is cleaved by incubation with 50 mM pyrrolidine. A specific tyrosine kinase inhibitor, bosutinib, was coupled to agarose and acrylamide beads, respectively, via the new linker system, and a protein pull-down experiment of putative interaction partners from a K562 whole cell lysate was performed. The system was found to be compatible with targeted protein pull-downs; during the cleavage step, no protein hydrolysis or any degradation of amino acid side-chains was apparent. From the pull-down experiment, key targets of bosutinib such as the tyrosine kinase, Btk, were identified by liquid chromatography-tandem mass spectrometry.
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Affiliation(s)
- Martin Sturm
- Department of Analytical Chemistry, University of Vienna, Vienna, Austria
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146
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Buchs (née Levrand) B, Fieber W, Vigouroux-Elie F, Sreenivasachary N, Lehn JM, Herrmann A. Release of bioactive volatiles from supramolecular hydrogels: influence of reversible acylhydrazone formation on gel stability and volatile compound evaporation. Org Biomol Chem 2011; 9:2906-19. [DOI: 10.1039/c0ob01139h] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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147
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Hunt RAR, Otto S. Dynamic combinatorial libraries: new opportunities in systems chemistry. Chem Commun (Camb) 2011; 47:847-58. [PMID: 21116521 DOI: 10.1039/c0cc03759a] [Citation(s) in RCA: 174] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Rosemary A R Hunt
- University of Cambridge, Department of Chemistry, Lensfield Road, Cambridge, CB2 1EW, UK
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148
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Reversible covalent chemistries compatible with the principles of constitutional dynamic chemistry: new reactions to create more diversity. Top Curr Chem (Cham) 2011; 322:291-314. [PMID: 22025070 DOI: 10.1007/128_2011_277] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
An approach to make chemical diversity space more manageable is to search for smaller molecules, or fragments, and then combine or elaborate these fragments. Dynamic Combinatorial Chemistry (DCC) is a powerful approach whereby a number of molecular elements each with binding potential can be reversibly combined via covalent or noncovalent linkages to generate a dynamic library of products under thermodynamic equilibrium. Once a target molecule has been added, the distribution of products can be shifted to favor products that bind to the target. Thus the approach can be employed to identify products that selectively recognize the target. Although the size of the repertoire of reversible covalent reactions suitable for DCC has increased significantly over the past 5-10 years, the discovery of new reactions that satisfy all the criteria of reversibility and biocompatibility remains an exciting challenge for chemists. Increasing the number of chemical reactions will enable the engineering of larger and more diverse DCLs, which remains a key step toward a broader use of DCC. In this review, we aim to provide a nonexhaustive list of reversible covalent reactions that are compatible with the concept of DCC, focusing mainly on the most recent examples that were reported in the literature in the past 5 years.
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149
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Zhu L, Tu C, Zhu B, Su Y, Pang Y, Yan D, Wu J, Zhu X. Construction and application of pH-triggered cleavable hyperbranched polyacylhydrazone for drug delivery. Polym Chem 2011. [DOI: 10.1039/c1py00161b] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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150
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Beeren SR, Sanders JKM. Ferrocene-amino acid macrocycles as hydrazone-based receptors for anions. Chem Sci 2011. [DOI: 10.1039/c1sc00168j] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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