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Hanna CC, Kriegesmann J, Dowman LJ, Becker CFW, Payne RJ. Chemical Synthesis and Semisynthesis of Lipidated Proteins. Angew Chem Int Ed Engl 2022; 61:e202111266. [PMID: 34611966 PMCID: PMC9303669 DOI: 10.1002/anie.202111266] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Indexed: 11/24/2022]
Abstract
Lipidation is a ubiquitous modification of peptides and proteins that can occur either co- or post-translationally. An array of different lipid classes can adorn proteins and has been shown to influence a number of crucial biological activities, including the regulation of signaling, cell-cell adhesion events, and the anchoring of proteins to lipid rafts and phospholipid membranes. Whereas nature employs a range of enzymes to install lipid modifications onto proteins, the use of these for the chemoenzymatic generation of lipidated proteins is often inefficient or impractical. An alternative is to harness the power of modern synthetic and semisynthetic technologies to access lipid-modified proteins in a pure and homogeneously modified form. This Review aims to highlight significant advances in the development of lipidation and ligation chemistry and their implementation in the synthesis and semisynthesis of homogeneous lipidated proteins that have enabled the influence of these modifications on protein structure and function to be uncovered.
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Affiliation(s)
- Cameron C. Hanna
- School of ChemistryThe University of SydneySydneyNSW2006Australia
| | - Julia Kriegesmann
- Institute of Biological ChemistryFaculty of ChemistryUniversity of ViennaViennaAustria
| | - Luke J. Dowman
- School of ChemistryThe University of SydneySydneyNSW2006Australia
- Australian Research Council Centre of Excellence for Innovations in Peptide and Protein ScienceThe University of SydneySydneyNSW2006Australia
| | | | - Richard J. Payne
- School of ChemistryThe University of SydneySydneyNSW2006Australia
- Australian Research Council Centre of Excellence for Innovations in Peptide and Protein ScienceThe University of SydneySydneyNSW2006Australia
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2
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Hanna CC, Kriegesmann J, Dowman LJ, Becker CFW, Payne RJ. Chemische Synthese und Semisynthese von lipidierten Proteinen. ANGEWANDTE CHEMIE (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2022; 134:e202111266. [PMID: 38504765 PMCID: PMC10947004 DOI: 10.1002/ange.202111266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Indexed: 11/11/2022]
Abstract
AbstractLipidierung ist eine ubiquitäre Modifikation von Peptiden und Proteinen, die entweder co‐ oder posttranslational auftreten kann. Für die Vielzahl von Lipidklassen wurde gezeigt, dass diese viele entscheidende biologische Aktivitäten, z. B. die Regulierung der Signalweiterleitung, Zell‐Zell‐Adhäsion sowie die Anlagerung von Proteinen an Lipid‐Rafts und Phospholipidmembranen, beeinflussen. Während die Natur Enzyme nutzt, um Lipidmodifikationen in Proteine einzubringen, ist ihre Nutzung für die chemoenzymatische Herstellung von lipidierten Proteinen häufig ineffizient. Eine Alternative ist die Kombination moderner synthetischer und semisynthetischer Techniken, um lipidierte Proteine in reiner und homogen modifizierter Form zu erhalten. Dieser Aufsatz erörtert Fortschritte in der Entwicklung der Lipidierungs‐ und Ligationschemie und deren Anwendung in der Synthese und Semisynthese homogen lipidierter Proteine, die es ermöglichen, den Einfluss dieser Modifikationen auf die Proteinstruktur und ‐funktion zu untersuchen.
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Affiliation(s)
- Cameron C. Hanna
- School of ChemistryThe University of SydneySydneyNSW2006Australien
| | - Julia Kriegesmann
- Institut für Biologische ChemieFakultät für ChemieUniversität WienWienÖsterreich
| | - Luke J. Dowman
- School of ChemistryThe University of SydneySydneyNSW2006Australien
- Australian Research Council Centre of Excellence for Innovations in Peptide and Protein ScienceThe University of SydneySydneyNSW2006Australien
| | | | - Richard J. Payne
- School of ChemistryThe University of SydneySydneyNSW2006Australien
- Australian Research Council Centre of Excellence for Innovations in Peptide and Protein ScienceThe University of SydneySydneyNSW2006Australien
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3
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Pineda-Castañeda HM, Insuasty-Cepeda DS, Niño-Ramírez VA, Curtidor H, Rivera-Monroy ZJ. Designing Short Peptides: A Sisyphean Task? CURR ORG CHEM 2020. [DOI: 10.2174/1385272824999200910094034] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Over the last few years, short peptides have become a powerful tool in basic and
applied research, with different uses like diagnostic, antimicrobial peptides, human health
promoters or bioactive peptides, therapeutic treatments, templates for peptidomimetic design,
and peptide-based vaccines. In this endeavor, different approaches and technologies
have been explored, such as bioinformatics, large-scale peptide synthesis, omics sciences,
structure-activity relationship studies, and a biophysical approach, among others, seeking to
obtain the shortest sequence with the best activity. The advantage of short peptides lies in
their stability, ease of production, safety, and low cost. There are many strategies for designing
short peptides with biomedical and industrial applications (targeting the structure, length,
charge, or polarity) or as a starting point for improving their properties (sequence data base,
de novo sequences, templates, or organic scaffolds). In peptide design, it is necessary to keep in mind factors
such as the application (peptidomimetic, immunogen, antimicrobial, bioactive, or protein-protein interaction
inhibitor), the expected target (membrane cell, nucleus, receptor proteins, or immune system), and particular
characteristics (shorter, conformationally constrained, cycled, charged, flexible, polymerized, or pseudopeptides).
This review summarizes the different synthetic approaches and strategies used to design new peptide analogs,
highlighting the achievements, constraints, and advantages of each.
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Affiliation(s)
| | | | - Víctor A. Niño-Ramírez
- Chemistry Department, Sciences Faculty, Universidad Nacional de Colombia, Bogota, Colombia
| | | | - Zuly J. Rivera-Monroy
- Chemistry Department, Sciences Faculty, Universidad Nacional de Colombia, Bogota, Colombia
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Gaina V, Nechifor M, Gaina C, Ursache O. Maleimides – a versatile platform for polymeric materials designed/tailored for high performance applications. POLYM-PLAST TECH MAT 2020. [DOI: 10.1080/25740881.2020.1811315] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- V. Gaina
- Laboratory of Poliaddition and Photochemistry, “Petru Poni” Institute of Macromolecular Chemistry, Iasi, Romania
| | - M. Nechifor
- Laboratory of Poliaddition and Photochemistry, “Petru Poni” Institute of Macromolecular Chemistry, Iasi, Romania
| | - C. Gaina
- Laboratory of Poliaddition and Photochemistry, “Petru Poni” Institute of Macromolecular Chemistry, Iasi, Romania
| | - O. Ursache
- Laboratory of Poliaddition and Photochemistry, “Petru Poni” Institute of Macromolecular Chemistry, Iasi, Romania
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5
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Lee TK, Manandhar B, Kassees KJ, Ahn JM. Peptide Ligation via the Suzuki-Miyaura Cross-Coupling Reaction. J Org Chem 2020; 85:1376-1384. [PMID: 31773962 DOI: 10.1021/acs.joc.9b02313] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Chemoselective ligation of two 28-mer peptides has been accomplished using the Suzuki-Miyaura cross-coupling reaction at or near physiological temperature in an aqueous solution containing sodium dodecyl sulfate in 83% yield. The effects of Pd source, solvent, base, and temperature were investigated, and the optimized reaction conditions were studied for compatibility with naturally present and artificially introduced functional groups in peptides including S-protected thiol and azide. The peptide conjugations were carried out in high yield (90%) with their functional groups intact. This method also allowed for facile introduction of an affinity tag or fluorescent probe into 20-mer peptides in >80% yield. These results suggest that the Suzuki-Miyaura cross-coupling is useful for multiple conjugations of peptides in conjunction with conventional conjugation reactions performed in sequence.
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Affiliation(s)
- Tae-Kyung Lee
- Department of Chemistry and Biochemistry , University of Texas at Dallas , 800 West Campbell Road , Richardson , Texas 75080 , United States
| | - Bikash Manandhar
- Department of Chemistry and Biochemistry , University of Texas at Dallas , 800 West Campbell Road , Richardson , Texas 75080 , United States
| | - Kara J Kassees
- Department of Chemistry and Biochemistry , University of Texas at Dallas , 800 West Campbell Road , Richardson , Texas 75080 , United States
| | - Jung-Mo Ahn
- Department of Chemistry and Biochemistry , University of Texas at Dallas , 800 West Campbell Road , Richardson , Texas 75080 , United States
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Lossouarn A, Renault K, Bailly L, Frisby A, Le Nahenec-Martel P, Renard PY, Sabot C. Maleimide-based metal-free ligation with dienes: a comparative study. Org Biomol Chem 2020; 18:3874-3887. [DOI: 10.1039/d0ob00403k] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Maleimide-based Diels–Alder strategies for bioconjugation are compared in terms of dienes accessibility and stability, reactions rates, as well as products isolation and stability.
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Affiliation(s)
| | | | | | - Axel Frisby
- Normandie Univ
- CNRS
- UNIROUEN
- INSA Rouen
- 76000 Rouen
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7
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Montgomery JE, Donnelly JA, Fanning SW, Speltz TE, Shangguan X, Coukos JS, Greene GL, Moellering RE. Versatile Peptide Macrocyclization with Diels-Alder Cycloadditions. J Am Chem Soc 2019; 141:16374-16381. [PMID: 31523967 DOI: 10.1021/jacs.9b07578] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Macrocyclization can improve bioactive peptide ligands through preorganization of molecular topology, leading to improvement of pharmacologic properties like binding affinity, cell permeability, and metabolic stability. Here we demonstrate that Diels-Alder [4 + 2] cycloadditions can be harnessed for peptide macrocyclization and stabilization within a range of peptide scaffolds and chemical environments. Diels-Alder cyclization of diverse diene-dienophile reactive pairs proceeds rapidly, in high yield and with tunable stereochemical preferences on solid-phase or in aqueous solution. This reaction can be applied alone or in concert with other stabilization chemistries, such as ring-closing olefin metathesis, to stabilize loop, turn, and α-helical secondary structural motifs. NMR and molecular dynamics studies of model loop peptides confirmed preferential formation of endo cycloadduct stereochemistry, imparting significant structural rigidity to the peptide backbone that resulted in augmented protease resistance and increased biological activity of a Diels-Alder cyclized (DAC) RGD peptide. Separately, we demonstrated the stabilization of DAC α-helical peptides derived from the ERα-binding protein SRC2. We solved a 2.25 Å cocrystal structure of one DAC helical peptide bound to ERα, which unequivocally corroborated endo stereochemistry of the resulting Diels-Alder adduct, and confirmed that the unique architecture of stabilizing motifs formed with this chemistry can directly contribute to target binding. These data establish Diels-Alder cyclization as a versatile approach to stabilize diverse protein structural motifs under a range of chemical environments.
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Pagel M. Inverse electron demand Diels-Alder (IEDDA) reactions in peptide chemistry. J Pept Sci 2019; 25:e3141. [PMID: 30585397 DOI: 10.1002/psc.3141] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Revised: 11/22/2018] [Accepted: 11/23/2018] [Indexed: 01/05/2023]
Abstract
Click chemistry is applied to selectively modify, lable and ligate peptides for their use as therapeutics, in biomaterials or analytical investigations. The inverse electron demand Diels-Alder (IEDDA) reaction is a catalyst-free click reaction with pronounced chemoselectivity and fast reaction rates. Applications and achievements of the IEDDA reaction in peptide chemistry since 2008 are described in this review.
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Affiliation(s)
- Mareen Pagel
- Institute of Biochemistry, Faculty of Biosciences, Pharmacy and Psychology, Leipzig University, Leipzig, Germany
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9
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Renault K, Fredy JW, Renard PY, Sabot C. Covalent Modification of Biomolecules through Maleimide-Based Labeling Strategies. Bioconjug Chem 2018; 29:2497-2513. [PMID: 29954169 DOI: 10.1021/acs.bioconjchem.8b00252] [Citation(s) in RCA: 119] [Impact Index Per Article: 19.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Since their first use in bioconjugation more than 50 years ago, maleimides have become privileged chemical partners for the site-selective modification of proteins via thio-Michael addition of biothiols and, to a lesser extent, via Diels-Alder (DA) reactions with biocompatible dienes. Prominent examples include immunotoxins and marketed maleimide-based antibody-drug conjugates (ADCs) such as Adcetris, which are used in cancer therapies. Among the key factors in the success of these groups is the availability of several maleimides that can be N-functionalized by fluorophores, affinity tags, spin labels, and pharmacophores, as well as their unique reactivities in terms of selectivity and kinetics. However, maleimide conjugate reactions have long been considered irreversible, and only recently have systematic studies regarding their reversibility and stability toward hydrolysis been reported. This review provides an overview of the diverse applications for maleimides in bioconjugation, highlighting their strengths and weaknesses, which are being overcome by recent strategies. Finally, the fluorescence quenching ability of maleimides was leveraged for the preparation of fluorogenic probes, which are mainly used for the specific detection of thiol analytes. A summary of the reported structures, their photophysical features, and their relative efficiencies is discussed in the last part of the review.
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Affiliation(s)
- Kévin Renault
- Normandie Univ, CNRS, UNIROUEN, INSA Rouen, COBRA (UMR 6014) , 76000 Rouen , France
| | - Jean Wilfried Fredy
- Normandie Univ, CNRS, UNIROUEN, INSA Rouen, COBRA (UMR 6014) , 76000 Rouen , France
| | - Pierre-Yves Renard
- Normandie Univ, CNRS, UNIROUEN, INSA Rouen, COBRA (UMR 6014) , 76000 Rouen , France
| | - Cyrille Sabot
- Normandie Univ, CNRS, UNIROUEN, INSA Rouen, COBRA (UMR 6014) , 76000 Rouen , France
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10
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Bermejo-Velasco D, Nawale GN, Oommen OP, Hilborn J, Varghese OP. Thiazolidine chemistry revisited: a fast, efficient and stable click-type reaction at physiological pH. Chem Commun (Camb) 2018; 54:12507-12510. [DOI: 10.1039/c8cc05405c] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
We describe the fast reaction kinetics between 1,2-aminothiols and aldehydes that afforded a stable thiazolidine product under physiological pH. This efficient and biocompatible reaction offers enormous potential for the coupling of biomolecules.
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Affiliation(s)
- Daniel Bermejo-Velasco
- Translational Chemical Biology Laboratory
- Division of Polymer Chemistry
- Department of Chemistry-Ångstrom
- Uppsala University
- Uppsala
| | - Ganesh N. Nawale
- Translational Chemical Biology Laboratory
- Division of Polymer Chemistry
- Department of Chemistry-Ångstrom
- Uppsala University
- Uppsala
| | - Oommen P. Oommen
- Bioengineering and Nanomedicine Lab
- Faculty of Biomedical Sciences and Engineering
- Tampere University of Technology, and BioMediTech Institute
- Tampere
- Finland
| | - Jöns Hilborn
- Translational Chemical Biology Laboratory
- Division of Polymer Chemistry
- Department of Chemistry-Ångstrom
- Uppsala University
- Uppsala
| | - Oommen P. Varghese
- Translational Chemical Biology Laboratory
- Division of Polymer Chemistry
- Department of Chemistry-Ångstrom
- Uppsala University
- Uppsala
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11
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Martens S, Holloway JO, Du Prez FE. Click and Click-Inspired Chemistry for the Design of Sequence-Controlled Polymers. Macromol Rapid Commun 2017; 38. [PMID: 28990247 DOI: 10.1002/marc.201700469] [Citation(s) in RCA: 69] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2017] [Revised: 08/18/2017] [Indexed: 01/09/2023]
Abstract
During the previous decade, many popular chemical reactions used in the area of "click" chemistry and similarly efficient "click-inspired" reactions have been applied for the design of sequence-defined and, more generally, sequence-controlled structures. This combination of topics has already made quite a significant impact on scientific research to date and has enabled the synthesis of highly functionalized and complex oligomeric and polymeric structures, which offer the prospect of many exciting further developments and applications in the near future. This minireview highlights the fruitful combination of these two topics for the preparation of sequence-controlled oligomeric and macromolecular structures and showcases the vast number of publications in this field within a relatively short span of time. It is divided into three sections according to the click-(inspired) reaction that has been applied: copper-catalyzed azide-alkyne cycloaddition, thiol-X, and related thiolactone-based reactions, and finally Diels-Alder-chemistry-based routes are outlined, respectively.
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Affiliation(s)
- Steven Martens
- Polymer Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Centre of Macromolecular Chemistry (CMaC), Ghent University, Krijgslaan 281 S4-bis, B-9000, Ghent, Belgium
| | - Joshua O Holloway
- Polymer Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Centre of Macromolecular Chemistry (CMaC), Ghent University, Krijgslaan 281 S4-bis, B-9000, Ghent, Belgium
| | - Filip E Du Prez
- Polymer Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Centre of Macromolecular Chemistry (CMaC), Ghent University, Krijgslaan 281 S4-bis, B-9000, Ghent, Belgium
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12
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Fisher SA, Baker AEG, Shoichet MS. Designing Peptide and Protein Modified Hydrogels: Selecting the Optimal Conjugation Strategy. J Am Chem Soc 2017; 139:7416-7427. [PMID: 28481537 DOI: 10.1021/jacs.7b00513] [Citation(s) in RCA: 103] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Hydrogels are used in a wide variety of biomedical applications including tissue engineering, biomolecule delivery, cell delivery, and cell culture. These hydrogels are often designed with a specific biological function in mind, requiring the chemical incorporation of bioactive factors to either mimic extracellular matrix or to deliver a payload to diseased tissue. Appropriate synthetic techniques to ligate bioactive factors, such as peptides and proteins, onto hydrogels are critical in designing materials with biological function. Here, we outline strategies for peptide and protein immobilization. We specifically focus on click chemistry, enzymatic ligation, and affinity binding for transient immobilization. Protein modification strategies have shifted toward site-specific modification using unnatural amino acids and engineered site-selective amino acid sequences to preserve both activity and structure. The selection of appropriate protein immobilization strategies is vital to engineering functional hydrogels. We provide insight into chemistry that balances the need for facile reactions while maintaining protein bioactivity or desired release.
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Affiliation(s)
- Stephanie A Fisher
- The Donnelly Centre for Cellular and Biomolecular Research, ‡Department of Chemical Engineering and Applied Chemistry, §Institute of Biomaterials and Biomedical Engineering, and ∥Department of Chemistry, University of Toronto , 160 College Street, Room 514, Toronto, Ontario M5S 3E1, Canada
| | - Alexander E G Baker
- The Donnelly Centre for Cellular and Biomolecular Research, ‡Department of Chemical Engineering and Applied Chemistry, §Institute of Biomaterials and Biomedical Engineering, and ∥Department of Chemistry, University of Toronto , 160 College Street, Room 514, Toronto, Ontario M5S 3E1, Canada
| | - Molly S Shoichet
- The Donnelly Centre for Cellular and Biomolecular Research, ‡Department of Chemical Engineering and Applied Chemistry, §Institute of Biomaterials and Biomedical Engineering, and ∥Department of Chemistry, University of Toronto , 160 College Street, Room 514, Toronto, Ontario M5S 3E1, Canada
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13
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Reversible Covalent and Supramolecular Functionalization of Water-Soluble Gold(I) Complexes. Chemistry 2017; 23:6048-6055. [DOI: 10.1002/chem.201700588] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Indexed: 11/07/2022]
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14
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Qafari SM, Ahmadian G, Mohammadi M. One-step purification and oriented attachment of protein A on silica and graphene oxide nanoparticles using sortase-mediated immobilization. RSC Adv 2017. [DOI: 10.1039/c7ra12128h] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
One-step purification and oriented immobilization of protein A on functionalized carriers.
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Affiliation(s)
- Seyed Mehdi Qafari
- Systems Biotechnology Department
- Institute of Industrial and Environmental Biotechnology
- National Institute of Genetic Engineering and Biotechnology (NIGEB)
- Tehran
- Iran
| | - Gholamreza Ahmadian
- Systems Biotechnology Department
- Institute of Industrial and Environmental Biotechnology
- National Institute of Genetic Engineering and Biotechnology (NIGEB)
- Tehran
- Iran
| | - Mehdi Mohammadi
- Bioprocess Engineering Department
- Institute of Industrial and Environmental Biotechnology
- National Institute of Genetic Engineering and Biotechnology (NIGEB)
- Tehran
- Iran
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15
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Renault K, Jouanno LA, Lizzul-Jurse A, Renard PY, Sabot C. Fluorogenic Behaviour of the Hetero-Diels-Alder Ligation of 5-Alkoxyoxazoles with Maleimides and their Applications. Chemistry 2016; 22:18522-18531. [DOI: 10.1002/chem.201603617] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2016] [Indexed: 12/21/2022]
Affiliation(s)
- Kévin Renault
- Normandie University; CNRS, UNIROUEN, INSA Rouen; COBRA (UMR 6014); 76000 Rouen France
| | - Laurie-Anne Jouanno
- Department of Chemistry and Biomolecular Sciences; University of Ottawa; 10 Marie Curie Ottawa Ontario K1N 6N5 Canada
| | - Antoine Lizzul-Jurse
- Normandie University; CNRS, UNIROUEN, INSA Rouen; COBRA (UMR 6014); 76000 Rouen France
| | - Pierre-Yves Renard
- Normandie University; CNRS, UNIROUEN, INSA Rouen; COBRA (UMR 6014); 76000 Rouen France
| | - Cyrille Sabot
- Normandie University; CNRS, UNIROUEN, INSA Rouen; COBRA (UMR 6014); 76000 Rouen France
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16
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Wohnig S, Spork AP, Koppermann S, Mieskes G, Gisch N, Jahn R, Ducho C. Total Synthesis of Dansylated Park's Nucleotide for High-Throughput MraY Assays. Chemistry 2016; 22:17813-17819. [PMID: 27791327 DOI: 10.1002/chem.201604279] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2016] [Indexed: 11/11/2022]
Abstract
The membrane protein translocase I (MraY) is a key enzyme in bacterial peptidoglycan biosynthesis. It is therefore frequently discussed as a target for the development of novel antibiotics. The screening of compound libraries for the identification of MraY inhibitors is enabled by an established fluorescence-based MraY assay. However, this assay requires a dansylated derivative of the bacterial biosynthetic intermediate Park's nucleotide as the MraY substrate. Isolation of Park's nucleotide from bacteria and subsequent dansylation only furnishes limited amounts of this substrate, thus hampering the high-throughput screening for MraY inhibitors. Accordingly, the efficient provision of dansylated Park's nucleotide is a major bottleneck in the exploration of this promising drug target. In this work, we present the first total synthesis of dansylated Park's nucleotide, affording an unprecedented amount of the target compound for high-throughput MraY assays.
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Affiliation(s)
- Stephanie Wohnig
- Department of Pharmacy, Pharmaceutical and Medicinal Chemistry, Saarland University, Campus C2 3, 66123, Saarbrücken, Germany.,Department of Chemistry, Institute of Organic and Biomolecular Chemistry, Georg-August-University Göttingen, Tammannstr. 2, 37077, Göttingen, Germany
| | - Anatol P Spork
- Department of Pharmacy, Pharmaceutical and Medicinal Chemistry, Saarland University, Campus C2 3, 66123, Saarbrücken, Germany.,Department of Chemistry, Institute of Organic and Biomolecular Chemistry, Georg-August-University Göttingen, Tammannstr. 2, 37077, Göttingen, Germany.,Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077, Göttingen, Germany
| | - Stefan Koppermann
- Department of Pharmacy, Pharmaceutical and Medicinal Chemistry, Saarland University, Campus C2 3, 66123, Saarbrücken, Germany.,Department of Chemistry, Institute of Organic and Biomolecular Chemistry, Georg-August-University Göttingen, Tammannstr. 2, 37077, Göttingen, Germany
| | - Gottfried Mieskes
- Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077, Göttingen, Germany
| | - Nicolas Gisch
- Division of Bioanalytical Chemistry, Research Center Borstel, Leibniz-Center for Medicine and Biosciences, Parkallee 1-40, 23845, Borstel, Germany
| | - Reinhard Jahn
- Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077, Göttingen, Germany
| | - Christian Ducho
- Department of Pharmacy, Pharmaceutical and Medicinal Chemistry, Saarland University, Campus C2 3, 66123, Saarbrücken, Germany.,Department of Chemistry, Institute of Organic and Biomolecular Chemistry, Georg-August-University Göttingen, Tammannstr. 2, 37077, Göttingen, Germany
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17
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Archibong E, Foster A, Caldwell K, Lita A, Mochona B, Mateeva N. Synthesis, characterization, and electrospinning of novel polyaniline-peptide polymers. APPLIED MATERIALS TODAY 2016; 4:78-82. [PMID: 29399607 PMCID: PMC5794223 DOI: 10.1016/j.apmt.2016.07.004] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
Aniline-peptide (FLDQV, FLDQVC, Dansyl-FLDQV, Dansyl-FLDQVC, and FLDQV-AMC) mixtures underwent oxidative chemical and electrochemical polymerization in excess of aniline. The products of the chemical polymerization were low molecular weight polymers containing more than 70% peptide. Electrochemically polymerized species polyaniline-FLDQV (PANI-FLDQV) consisted mainly of polyaniline units containing about 10% peptide. The solubility of the latter in 1,1,1,3,3,3-hexafluoro-2-propanol (HFP) was similar to the camphorsulfonic acid (CSA) doped emeraldine base (PANI-CSA) solubility, however the weight composition of the electrospun fibers produced from the two polymers was significantly different. 2D 1H-13C HSQC analyses were employed to analyze the binding between the aniline and peptide moieties. Binding of peptide to polyaniline is reflected by the appearance of extra cross-peaks which display line broadening between the free polyaniline and the free pentapeptide. Peptides may be chemically bonded to the polymer molecules, but they may also act as doping agents to the nitrogen atoms via hydrogen bonding.
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Affiliation(s)
- Edikan Archibong
- Department of Chemical and Biomedical Engineering, University of South Florida, Tampa, FL 33612, United States
| | - Alexander Foster
- Department of Chemistry, Florida A&M University, Tallahassee, FL 32307, United States
| | - Keirsten Caldwell
- Department of Chemistry, Florida A&M University, Tallahassee, FL 32307, United States
| | - Adrian Lita
- Department of Chemistry, Florida State University, Tallahassee, FL 32306, United States
| | - Bereket Mochona
- Department of Chemistry, Florida A&M University, Tallahassee, FL 32307, United States
| | - Nelly Mateeva
- Department of Chemistry, Florida A&M University, Tallahassee, FL 32307, United States
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18
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Affiliation(s)
- Tom Mejuch
- Department
of Chemical Biology, Max-Planck Institute of Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
| | - Herbert Waldmann
- Department
of Chemical Biology, Max-Planck Institute of Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
- Department
of Chemistry and Chemical Biology, Technical University of Dortmund, Otto-Hahn-Strasse 6, 44227 Dortmund, Germany
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19
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Kitamura Y, Sakamoto R, Shiraishi T, Oguri H, Ohno S, Kitade Y. Practical modification of peptides using ligand-free copper-catalyzed azide–alkyne cycloaddition. Tetrahedron 2016. [DOI: 10.1016/j.tet.2016.05.029] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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20
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Schäfer B, Orbán E, Fiser G, Marton A, Vizler C, Tömböly C. Semisynthesis of membrane-anchored cholesteryl lipoproteins on live cell surface by azide–alkyne click reaction. Tetrahedron Lett 2016. [DOI: 10.1016/j.tetlet.2016.01.041] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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21
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Pagel M, Meier R, Braun K, Wiessler M, Beck-Sickinger AG. On-resin Diels–Alder reaction with inverse electron demand: an efficient ligation method for complex peptides with a varying spacer to optimize cell adhesion. Org Biomol Chem 2016; 14:4809-16. [DOI: 10.1039/c6ob00314a] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The DARinvon resin is a new orthogonal reaction in peptide synthesis and the benefits for cell adhesion are discussed.
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Affiliation(s)
- Mareen Pagel
- Institute of Biochemistry
- Faculty of Biosciences
- Pharmacy and Psychology
- Leipzig
- Germany
| | - René Meier
- Institute of Biochemistry
- Faculty of Biosciences
- Pharmacy and Psychology
- Leipzig
- Germany
| | - Klaus Braun
- Deutsches Krebsforschungszentrum
- 69120 Heidelberg
- Germany
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22
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The Diels–Alder reaction: A powerful tool for the design of drug delivery systems and biomaterials. Eur J Pharm Biopharm 2015; 97:438-53. [DOI: 10.1016/j.ejpb.2015.06.007] [Citation(s) in RCA: 114] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2015] [Revised: 06/03/2015] [Accepted: 06/05/2015] [Indexed: 01/06/2023]
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23
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Brun O, Elduque X, Pedroso E, Grandas A. On-Resin Conjugation of Diene-Polyamides and Maleimides via Diels-Alder Cycloaddition. J Org Chem 2015; 80:6093-101. [PMID: 25985351 DOI: 10.1021/acs.joc.5b00592] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
The reaction between maleimides and resin-linked diene-polyamides allows the latter to be used in the preparation of conjugates. Conjugation takes place by reacting the insoluble, hydrophobic diene component either with water-soluble dienophiles or with dienophiles requiring mixtures of water and organic solvents. Experimental conditions can be adjusted to furnish the target conjugate in good yield with no need of adding large excesses of soluble reagent. In case protected maleimides are used, maleimide deprotection and Diels-Alder cycloaddition can be simultaneously carried out to render conjugates with different linking positions. On-resin conjugation is followed by an acidic treatment that removes the polyamide protecting groups with no harm to the cycloadduct, in contrast with the unreacted diene that is indeed degraded under these conditions. Cycloadducts incorporating suitable functional groups can undergo subsequent additional conjugation reactions in solution to furnish double conjugates.
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Affiliation(s)
- Omar Brun
- Departament de Química Orgànica, Facultat de Química and IBUB, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
| | - Xavier Elduque
- Departament de Química Orgànica, Facultat de Química and IBUB, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
| | - Enrique Pedroso
- Departament de Química Orgànica, Facultat de Química and IBUB, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
| | - Anna Grandas
- Departament de Química Orgànica, Facultat de Química and IBUB, Universitat de Barcelona, Martí i Franquès 1-11, 08028 Barcelona, Spain
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24
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Rashidian M, Dozier JK, Distefano MD. Enzymatic labeling of proteins: techniques and approaches. Bioconjug Chem 2014; 24:1277-94. [PMID: 23837885 DOI: 10.1021/bc400102w] [Citation(s) in RCA: 200] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Site-specific modification of proteins is a major challenge in modern chemical biology due to the large number of reactive functional groups typically present in polypeptides. Because of its importance in biology and medicine, the development of methods for site-specific modification of proteins is an area of intense research. Selective protein modification procedures have been useful for oriented protein immobilization, for studies of naturally occurring post-translational modifications, for creating antibody–drug conjugates, for the introduction of fluorophores and other small molecules on to proteins, for examining protein structure, folding, dynamics, and protein–protein interactions, and for the preparation of protein–polymer conjugates. One of the most important approaches for protein labeling is to incorporate bioorthogonal functionalities into proteins at specific sites via enzymatic reactions. The incorporated tags then enable reactions that are chemoselective, whose functional groups not only are inert in biological media, but also do not occur natively in proteins or other macromolecules. This review article summarizes the enzymatic strategies, which enable site-specific functionalization of proteins with a variety of different functional groups. The enzymes covered in this review include formylglycine generating enzyme, sialyltransferases, phosphopantetheinyltransferases, O-GlcNAc post-translational modification, sortagging, transglutaminase, farnesyltransferase, biotin ligase, lipoic acid ligase, and N-myristoyltransferase.
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25
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Jouanno LA, Chevalier A, Sekkat N, Perzo N, Castel H, Romieu A, Lange N, Sabot C, Renard PY. Kondrat’eva Ligation: Diels–Alder-Based Irreversible Reaction for Bioconjugation. J Org Chem 2014; 79:10353-66. [DOI: 10.1021/jo501972m] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Laurie-Anne Jouanno
- Normandie Univ, COBRA, UMR 6014 & FR 3038; Univ Rouen; INSA Rouen; CNRS, 1 rue Tesnière, 76821 Mont-Saint-Aignan Cedex, France
| | - Arnaud Chevalier
- Normandie Univ, COBRA, UMR 6014 & FR 3038; Univ Rouen; INSA Rouen; CNRS, 1 rue Tesnière, 76821 Mont-Saint-Aignan Cedex, France
| | - Nawal Sekkat
- Section
des Sciences Pharmaceutiques, Université de Genève, Université de Lausanne, Quai Ernest Ansermet 30, CH-1211 Genève 4, Switzerland
| | - Nicolas Perzo
- Inserm
U982, Laboratory of Neuronal and Neuroendocrine Communication and
Differentiation (DC2N), Astrocyte and Vascular Niche, Institute of
Research and Biomedical Innovation (IRIB), PRES Normandy University, University of Rouen, 76821 Mont-Saint-Aignan Cedex, France
- North-West Cancéropole (CNO), 59008 Lille Cedex, France
| | - Hélène Castel
- Inserm
U982, Laboratory of Neuronal and Neuroendocrine Communication and
Differentiation (DC2N), Astrocyte and Vascular Niche, Institute of
Research and Biomedical Innovation (IRIB), PRES Normandy University, University of Rouen, 76821 Mont-Saint-Aignan Cedex, France
- North-West Cancéropole (CNO), 59008 Lille Cedex, France
| | - Anthony Romieu
- ICMUB,
UMR CNRS 6302, Université de Bourgogne, 9 Avenue Alain Savary, 21078 Dijon, France
- Institut Universitaire de France, 103 Boulevard Saint-Michel, 75005 Paris, France
| | - Norbert Lange
- Section
des Sciences Pharmaceutiques, Université de Genève, Université de Lausanne, Quai Ernest Ansermet 30, CH-1211 Genève 4, Switzerland
| | - Cyrille Sabot
- Normandie Univ, COBRA, UMR 6014 & FR 3038; Univ Rouen; INSA Rouen; CNRS, 1 rue Tesnière, 76821 Mont-Saint-Aignan Cedex, France
| | - Pierre-Yves Renard
- Normandie Univ, COBRA, UMR 6014 & FR 3038; Univ Rouen; INSA Rouen; CNRS, 1 rue Tesnière, 76821 Mont-Saint-Aignan Cedex, France
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26
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Ma X, Wang H, Chen W. N-heterocyclic carbene-stabilized palladium complexes as organometallic catalysts for bioorthogonal cross-coupling reactions. J Org Chem 2014; 79:8652-8. [PMID: 25144406 DOI: 10.1021/jo5014228] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
A small library of water-soluble N-heterocyclic carbene (NHC)-stabilized palladium complexes was prepared and applied for cross-couplings of biomolecules under mild conditions in water. Pd-NHC complexes bearing hydrophilic groups were demonstrated to be efficient catalysts for the Suzuki-Miyaura coupling of various unnatural amino acids and proteins bearing p-iodophenyl functional groups. We further utilized this catalytic system for the rapid bioorthogonal labeling of proteins on the surfaces of mammalian cells. These results demonstrated that NHC-stabilized metal complexes have potential utility in cellular systems.
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Affiliation(s)
- Xueji Ma
- Department of Chemistry, Zhejiang University , Xixi Campus, Hangzhou 310028, China
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27
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Chemical Synthesis and Biological Function of Lipidated Proteins. PROTEIN LIGATION AND TOTAL SYNTHESIS I 2014; 362:137-82. [DOI: 10.1007/128_2014_582] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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28
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Tang W, Becker ML. “Click” reactions: a versatile toolbox for the synthesis of peptide-conjugates. Chem Soc Rev 2014; 43:7013-39. [DOI: 10.1039/c4cs00139g] [Citation(s) in RCA: 271] [Impact Index Per Article: 27.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Peptides that comprise the functional subunits of proteins have been conjugated to versatile materials (biomolecules, polymers, surfaces and nanoparticles) in an effort to modulate cell responses, specific binding affinity and/or self-assembly behavior.
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Affiliation(s)
- Wen Tang
- Department of Polymer Science
- The University of Akron
- Akron, USA
| | - Matthew L. Becker
- Department of Polymer Science
- The University of Akron
- Akron, USA
- Department of Biomedical Engineering
- The University of Akron
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29
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Peptide conjugation via CuAAC 'click' chemistry. Molecules 2013; 18:13148-74. [PMID: 24284482 PMCID: PMC6270195 DOI: 10.3390/molecules181113148] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Revised: 10/09/2013] [Accepted: 10/10/2013] [Indexed: 01/14/2023] Open
Abstract
The copper (I)-catalyzed alkyne azide 1,3-dipolar cycloaddition (CuAAC) or ‘click’ reaction, is a highly versatile reaction that can be performed under a variety of reaction conditions including various solvents, a wide pH and temperature range, and using different copper sources, with or without additional ligands or reducing agents. This reaction is highly selective and can be performed in the presence of other functional moieties. The flexibility and selectivity has resulted in growing interest in the application of CuAAC in various fields. In this review, we briefly describe the importance of the structural folding of peptides and proteins and how the 1,4-disubstituted triazole product of the CuAAC reaction is a suitable isoster for an amide bond. However the major focus of the review is the application of this reaction to produce peptide conjugates for tagging and targeting purpose, linkers for multifunctional biomacromolecules, and reporter ions for peptide and protein analysis.
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30
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Li Q, Dong T, Liu X, Lei X. A Bioorthogonal Ligation Enabled by Click Cycloaddition of o-Quinolinone Quinone Methide and Vinyl Thioether. J Am Chem Soc 2013; 135:4996-9. [DOI: 10.1021/ja401989p] [Citation(s) in RCA: 105] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Qiang Li
- Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100730, China
- National Institute of Biological Sciences (NIBS), Beijing 102206, China
| | - Ting Dong
- Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100730, China
- National Institute of Biological Sciences (NIBS), Beijing 102206, China
| | - Xiaohui Liu
- College of Pharmaceutical Science
and Technology, Tianjin University, Tianjin
300072, China
| | - Xiaoguang Lei
- National Institute of Biological Sciences (NIBS), Beijing 102206, China
- College of Pharmaceutical Science
and Technology, Tianjin University, Tianjin
300072, China
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31
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De Rosa L, Russomanno A, Romanelli A, D’Andrea LD. Semi-synthesis of labeled proteins for spectroscopic applications. Molecules 2013; 18:440-65. [PMID: 23282535 PMCID: PMC6269674 DOI: 10.3390/molecules18010440] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2012] [Revised: 12/21/2012] [Accepted: 12/24/2012] [Indexed: 12/24/2022] Open
Abstract
Since the introduction of SPPS by Merrifield in the 60s, peptide chemists have considered the possibility of preparing large proteins. The introduction of native chemical ligation in the 90s and then of expressed protein ligation have opened the way to the preparation of synthetic proteins without size limitations. This review focuses on semi-synthetic strategies useful to prepare proteins decorated with spectroscopic probes, like fluorescent labels and stable isotopes, and their biophysical applications. We show that expressed protein ligation, combining the advantages of organic chemistry with the easy and size limitless recombinant protein expression, is an excellent strategy for the chemical synthesis of labeled proteins, enabling a single protein to be functionalized at one or even more distinct positions with different probes.
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Affiliation(s)
- Lucia De Rosa
- Istituto di Biostrutture e Bioimmagini, CNR, Via Mezzocannone 16, Napoli 80134, Italy; E-Mails: (L.D.R.); (A.R.)
| | - Anna Russomanno
- Istituto di Biostrutture e Bioimmagini, CNR, Via Mezzocannone 16, Napoli 80134, Italy; E-Mails: (L.D.R.); (A.R.)
| | - Alessandra Romanelli
- Dipartimento delle Scienze Biologiche, Università di Napoli “Federico II”, Via Mezzocannone 16, Napoli 80134, Italy; E-Mail:
| | - Luca Domenico D’Andrea
- Istituto di Biostrutture e Bioimmagini, CNR, Via Mezzocannone 16, Napoli 80134, Italy; E-Mails: (L.D.R.); (A.R.)
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +39-081-253-6679; Fax: +39-081-253-4574
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32
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Pratama PA, Peterson AM, Palmese GR. The role of maleimide structure in the healing of furan-functionalized epoxy–amine thermosets. Polym Chem 2013. [DOI: 10.1039/c3py00084b] [Citation(s) in RCA: 38] [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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33
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Chen C, Fruk L. Functionalization of maleimide-coated silver nanoparticles through Diels–Alder cycloaddition. RSC Adv 2013. [DOI: 10.1039/c2ra22738j] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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34
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Hoogewijs K, Buyst D, Winne JM, Martins JC, Madder A. Exploiting furan's versatile reactivity in reversible and irreversible orthogonal peptide labeling. Chem Commun (Camb) 2013; 49:2927-9. [DOI: 10.1039/c3cc40588e] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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35
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Palomo JM. Click reactions in protein chemistry: from the preparation of semisynthetic enzymes to new click enzymes. Org Biomol Chem 2012; 10:9309-18. [PMID: 23023600 DOI: 10.1039/c2ob26409a] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Click-chemistry is an approach based on cycloaddition reactions which has been successfully used as a chemical approach for complex organic molecules and which has recently starred in a boom in the world of protein chemistry. The advantage of the use of this technique in protein chemistry is based on a very high and efficient chemoselectivity, which usually requires simple or no purification and is extremely rate-accelerated in aqueous media. The perspective discusses some of the most recent advances in the application of this reaction in selective enzyme surface modification for the creation of new semisynthetic enzymes (fluorescence labeled enzymes, peptide-enzyme conjugates, glycosylated enzymes), and interestingly, the recent design and creation of "click" enzymes.
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Affiliation(s)
- Jose M Palomo
- Departamento de Biocatálisis. Instituto de Catálisis (CSIC). C/ Marie Curie 2. Cantoblanco. Campus UAM, 28049 Madrid, Spain.
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36
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37
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Tang SY, Shi J, Guo QX. Accurate prediction of rate constants of Diels–Alder reactions and application to design of Diels–Alder ligation. Org Biomol Chem 2012; 10:2673-82. [DOI: 10.1039/c2ob07079k] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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38
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Chen YX, Triola G, Waldmann H. Bioorthogonal chemistry for site-specific labeling and surface immobilization of proteins. Acc Chem Res 2011; 44:762-73. [PMID: 21648407 DOI: 10.1021/ar200046h] [Citation(s) in RCA: 130] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Understanding protein structure and function is essential for uncovering the secrets of biology, but it remains extremely challenging because of the high complexity of protein networks and their wiring. The daunting task of elucidating these interconnections requires the concerted application of methods emerging from different disciplines. Chemical biology integrates chemistry, biology, and pharmacology and has provided novel techniques and approaches to the investigation of biological processes. Among these, site-specific protein labeling with functional groups such as fluorophors, spin probes, and affinity tags has greatly facilitated both in vitro and in vivo studies of protein structure and function. Bioorthogonal chemical reactions, which enable chemo- and regioselective attachment of small-molecule probes to proteins, are particularly attractive and relevant for site-specific protein labeling. The introduction of powerful labeling techniques also has inspired the development of novel strategies for surface immobilization of proteins to create protein biochips for in vitro characterization of biochemical activities or interactions between proteins. Because this process requires the efficient immobilization of proteins on surfaces while maintaining structure and activity, tailored methods for protein immobilization based on bioorthogonal chemical reactions are in high demand. In this Account, we summarize recent developments and applications of site-specific protein labeling and surface immobilization of proteins, with a special focus on our contributions to these fields. We begin with the Staudinger ligation, which involves the formation of a stable amide bond after the reaction of a preinstalled azide with a triaryl phosphine reagent. We then examine the Diels-Alder reaction, which requires the protein of interest to be functionalized with a diene, enabling conjugation to a variety of dienophiles under physiological conditions. In the oxime ligation, an oxyamine is condensed with either an aldehyde or a ketone to form an oxime; we successfully pursued the inverse of the standard technique by attaching the oxyamine, rather than the aldehyde, to the protein. The click sulfonamide reaction, which involves the Cu(I)-catalyzed reaction of sulfonylazides with terminal alkynes, is then discussed. Finally, we consider in detail the photochemical thiol-ene reaction, in which a thiol adds to an ene group after free radical initiation. Each of these methods has been successfully developed as a bioorthogonal transformation for oriented protein immobilization on chips and for site-specific protein labeling under physiological conditions. Despite the tremendous progress in developing such transformations over the past decade, however, the demand for new bioorthogonal methods with improved kinetics and selectivities remains high.
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Affiliation(s)
- Yong-Xiang Chen
- Abteilung Chemische Biologie, Max-Planck-Institut für Molekulare Physiologie, Otto-Hahn-Str. 11, 44227 Dortmund, Germany
- Fakultät Chemie, Lehrbereich Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
| | - Gemma Triola
- Abteilung Chemische Biologie, Max-Planck-Institut für Molekulare Physiologie, Otto-Hahn-Str. 11, 44227 Dortmund, Germany
- Fakultät Chemie, Lehrbereich Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
| | - Herbert Waldmann
- Abteilung Chemische Biologie, Max-Planck-Institut für Molekulare Physiologie, Otto-Hahn-Str. 11, 44227 Dortmund, Germany
- Fakultät Chemie, Lehrbereich Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
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39
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Steinhagen M, Holland-Nell K, Meldal M, Beck-Sickinger AG. Simultaneous “One Pot” Expressed Protein Ligation and CuI-Catalyzed Azide/Alkyne Cycloaddition for Protein Immobilization. Chembiochem 2011; 12:2426-30. [DOI: 10.1002/cbic.201100434] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2011] [Indexed: 01/15/2023]
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40
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Buller F, Steiner M, Frey K, Mircsof D, Scheuermann J, Kalisch M, Bühlmann P, Supuran CT, Neri D. Selection of Carbonic Anhydrase IX Inhibitors from One Million DNA-Encoded Compounds. ACS Chem Biol 2011; 6:336-44. [PMID: 21186831 DOI: 10.1021/cb1003477] [Citation(s) in RCA: 110] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
DNA-encoded chemical libraries, i.e., collections of compounds individually coupled to distinctive DNA fragments serving as amplifiable identification barcodes, represent a new tool for the de novo discovery of small molecule ligands to target proteins of pharmaceutical interest. Here, we describe the design and synthesis of a novel DNA-encoded chemical library containing one million small molecules. The library was synthesized by combinatorial assembly of three sets of chemical building blocks using Diels-Alder cycloadditions and by the stepwise build-up of the DNA barcodes. Model selections were performed to test library performance and to develop a statistical method for the analysis of high-throughput sequencing data. A library selection against carbonic anhydrase IX revealed a new class of submicromolar bis(sulfonamide) inhibitors. One of these inhibitors was synthesized in the absence of the DNA-tag and showed accumulation in hypoxic tumor tissue sections in vitro and tumor targeting in vivo.
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Affiliation(s)
- Fabian Buller
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
| | - Martina Steiner
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
| | - Katharina Frey
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
| | - Dennis Mircsof
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
| | - Jörg Scheuermann
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
| | - Markus Kalisch
- Seminar for Statistics, ETH Zürich, Rämistrasse 101, CH-8092 Zurich, Switzerland
| | - Peter Bühlmann
- Seminar for Statistics, ETH Zürich, Rämistrasse 101, CH-8092 Zurich, Switzerland
| | - Claudiu T. Supuran
- Laboratorio di Chimica Bioinorganica, Università degli Studi di Firenze, Rm. 188, Via della Lastruccia 3, I-50019 Sesto Fiorentino, Firenze, Italy
| | - Dario Neri
- Institute of Pharmaceutical Sciences, Department of Chemistry and Applied Biosciences, ETH Zurich, Wolfgang-Pauli-Strasse 10, CH-8093 Zurich, Switzerland
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41
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Yang P, Marinakos SM, Chilkoti A. Spatially addressable chemoselective C-terminal ligation of an intein fusion protein from a complex mixture to a hydrazine-terminated surface. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:1463-71. [PMID: 21142101 PMCID: PMC3189817 DOI: 10.1021/la104186n] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Protein immobilization on surfaces is useful in many areas of research, including biological characterization, antibody purification, and clinical diagnostics. A critical limitation in the development of protein microarrays and heterogeneous protein-based assays is the enormous amount of work and associated costs in the purification of proteins prior to their immobilization onto a surface. Methods to address this problem would simplify the development of interfacial diagnostics that use a protein as the recognition element. Herein, we describe an approach for the facile, site-specific immobilization of proteins on a surface without any preprocessing or sample purification steps that ligates an intein fusion protein at its C-terminus by reaction with a hydrazine group presented by a surface. Furthermore, we demonstrate that this methodology can directly immobilize a protein directly from cell lysate onto a protein-resistant surface. This methodology is also compatible with soft lithography and inkjet printing so that one or more proteins can be patterned on a surface without the need for purification.
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Tasdelen MA. Diels–Alder “click” reactions: recent applications in polymer and material science. Polym Chem 2011. [DOI: 10.1039/c1py00041a] [Citation(s) in RCA: 439] [Impact Index Per Article: 33.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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Filice M, Romero O, Guisan JM, Palomo JM. trans,trans-2,4-Hexadiene incorporation on enzymes for site-specific immobilization and fluorescent labeling. Org Biomol Chem 2011; 9:5535-40. [DOI: 10.1039/c1ob05401e] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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Ein Meisterstück in der Synthese: wohldefinierte, multivalente und multimodale dendritische Architekturen für biomedizinische Anwendungen. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.201003968] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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Röglin L, Lempens EHM, Meijer EW. A Synthetic “Tour de Force”: Well‐Defined Multivalent and Multimodal Dendritic Structures for Biomedical Applications. Angew Chem Int Ed Engl 2010; 50:102-12. [DOI: 10.1002/anie.201003968] [Citation(s) in RCA: 126] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Lars Röglin
- Laboratory of Chemical Biology, Department of Biomedical Engineering, Eindhoven University of Technology, PO Box 513, 5600 MB Eindhoven (The Netherlands), Fax: (+31) 40‐245‐1036
| | - Edith H. M. Lempens
- Laboratory of Chemical Biology, Department of Biomedical Engineering, Eindhoven University of Technology, PO Box 513, 5600 MB Eindhoven (The Netherlands), Fax: (+31) 40‐245‐1036
| | - E. W. Meijer
- Laboratory of Chemical Biology, Department of Biomedical Engineering, Eindhoven University of Technology, PO Box 513, 5600 MB Eindhoven (The Netherlands), Fax: (+31) 40‐245‐1036
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Affiliation(s)
- Jose M. Palomo
- Departamento de Biocatálisis, Instituto de Catálisis (CSIC), c/ Marie Curie 2, Cantoblanco Campus UAM, 28049 Madrid, Spain, Fax: +34‐91‐585‐4760
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Willems LI, Verdoes M, Florea BI, van der Marel GA, Overkleeft HS. Two-Step Labeling of Endogenous Enzymatic Activities by Diels-Alder Ligation. Chembiochem 2010; 11:1769-81. [DOI: 10.1002/cbic.201000280] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Engin S, Trouillet V, Franz CM, Welle A, Bruns M, Wedlich D. Benzylguanine thiol self-assembled monolayers for the immobilization of SNAP-tag proteins on microcontact-printed surface structures. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2010; 26:6097-6101. [PMID: 20369837 DOI: 10.1021/la904829y] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
The site-selective, oriented, covalent immobilization of proteins on surfaces is an important issue in the establishment of microarrays, biosensors, biocatalysts, and cell assays. Here we describe the preparation of self-assembled monolayers consisting of benzylguanine thiols (BGT) to which SNAP-tag fusion proteins can be covalently linked. The SNAP-tag, a modified O(6)-alkylguanine-DNA alkyltransferase (AGT), reacts with the headgroup of BGT and becomes covalently bound upon the release of guanine. Bacterially produced recombinant His-tag-SNAP-tag-GFP was used to demonstrate the site-specific immobilization on BGT surface patterns created by microcontact printing (microCP). With this versatile method, any SNAP-tag protein can be coupled to a surface.
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Affiliation(s)
- Sinem Engin
- Center for Functional Nanostructures, Karlsruhe Institute for Technology, Kaiserstrasse 12, D-76131 Karlsruhe, Germany
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Tiefenbrunn TK, Dawson PE. Chemoselective ligation techniques: modern applications of time-honored chemistry. Biopolymers 2010; 94:95-106. [PMID: 20091876 DOI: 10.1002/bip.21337] [Citation(s) in RCA: 62] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Chemoselective ligation techniques enable the selective modification of proteins and other biomolecules in dilute aqueous solution. Importantly, these reactions occur at or near physiological pH and are compatible with the complex array of functional groups commonly found in biological macromolecules including proteins, nucleotides, and carbohydrates, allowing conjugation reactions to be carried out on unprotected substrates. Recently, a growing number of reactions with established utility in synthetic organic chemistry have been shown to have surprising utility in the context of biological molecules in aqueous media. In this review we highlight several promising reactions that may have widespread applicability in the generation of new materials based on biological macromolecules.
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Affiliation(s)
- Theresa K Tiefenbrunn
- Department of Cell Biology, 10550 N. Torrey Pines Road, The Scripps Research Institute, La Jolla, CA 92037, USA
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de Paz JL, Mar Kayser M, Macchione G, Nieto PM. Exploration of the use of an acylsulfonamide safety-catch linker for the polymer-supported synthesis of hyaluronic acid oligosaccharides. Carbohydr Res 2010; 345:565-71. [DOI: 10.1016/j.carres.2009.12.021] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2009] [Revised: 12/17/2009] [Accepted: 12/21/2009] [Indexed: 10/20/2022]
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