1
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Fábregas-Ibáñez L, Mertens V, Ritsch I, von Hagens T, Stoll S, Jeschke G. Dipolar pathways in multi-spin and multi-dimensional dipolar EPR spectroscopy. Phys Chem Chem Phys 2022; 24:22645-22660. [PMID: 36106486 PMCID: PMC9516884 DOI: 10.1039/d2cp03048a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 09/07/2022] [Indexed: 11/24/2022]
Abstract
Dipolar electron paramagnetic resonance (EPR) experiments, such as double electron-electron resonance (DEER), measure distributions of nanometer-scale distances between unpaired electrons, which provide valuable information for structural characterization of proteins and other macromolecular systems. We present an extension to our previously published general model based on dipolar pathways valid for multi-dimensional dipolar EPR experiments with more than two spin-1/2 labels. We examine the 4-pulse DEER and TRIER experiments in terms of dipolar pathways and show experimental results confirming the theoretical predictions. This extension to the dipolar pathways model allows the analysis of previously challenging datasets and the extraction of multivariate distance distributions.
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Affiliation(s)
- Luis Fábregas-Ibáñez
- ETH Zurich, Laboratory of Physical Chemistry, Vladimir-Prelog-Weg 2, Zurich, Switzerland
| | - Valerie Mertens
- ETH Zurich, Laboratory of Physical Chemistry, Vladimir-Prelog-Weg 2, Zurich, Switzerland
| | - Irina Ritsch
- ETH Zurich, Laboratory of Physical Chemistry, Vladimir-Prelog-Weg 2, Zurich, Switzerland
| | - Tona von Hagens
- ETH Zurich, Laboratory of Physical Chemistry, Vladimir-Prelog-Weg 2, Zurich, Switzerland
| | - Stefan Stoll
- Department of Chemistry, University of Washington, Seattle, WA 98195, Washington, USA
| | - Gunnar Jeschke
- ETH Zurich, Laboratory of Physical Chemistry, Vladimir-Prelog-Weg 2, Zurich, Switzerland
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2
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Osswald U, Boneberg J, Wittmann V. Photoswitching Affinity and Mechanism of Multivalent Lectin Ligands. Chemistry 2022; 28:e202200267. [PMID: 35286724 PMCID: PMC9325471 DOI: 10.1002/chem.202200267] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Indexed: 11/09/2022]
Abstract
Multivalent receptor–ligand binding is a key principle in a plethora of biological recognition processes. Immense binding affinities can be achieved with the correct spatial orientation of the ligands. Accordingly, the incorporation of photoswitches, which can be used to reversibly change the spatial orientation of molecules, into multivalent ligands is a means to alter the binding affinity and possibly also the binding mode of such ligands. We report a divalent ligand for the model lectin wheat germ agglutinin (WGA) containing an arylazopyrazole photoswitch. This switch, which has recently been introduced as an alternative to the more commonly used azobenzene moiety, is characterized by almost quantitative E/Z photoswitching in both directions, high quantum yields, and high thermal stability of the Z isomer. The ligand was designed in a way that only one of the isomers is able to bridge adjacent binding sites of WGA leading to a chelating binding mode. Photoswitching induces an unprecedentedly high change in lectin binding affinity as determined by isothermal titration calorimetry (ITC). Furthermore, additional dynamic light scattering (DLS) data suggest that the binding mode of the ligand changes from chelating binding of the E isomer to crosslinking binding of the Z isomer.
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Affiliation(s)
- Uwe Osswald
- Department of ChemistryUniversity of Konstanz78457KonstanzGermany
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3
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O'Reilly C, Blasco S, Parekh B, Collins H, Cooke G, Gunnlaugsson T, Byrne JP. Ruthenium-centred btp glycoclusters as inhibitors for Pseudomonas aeruginosa biofilm formation. RSC Adv 2021; 11:16318-16325. [PMID: 35479152 PMCID: PMC9030604 DOI: 10.1039/d0ra05107a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Accepted: 04/26/2021] [Indexed: 11/21/2022] Open
Abstract
Carbohydrate-decorated clusters (glycoclusters) centred on a Ru(ii) ion were synthesised and tested for their activity against Pseudomonas aeruginosa biofilm formation. These clusters were designed by conjugating a range of carbohydrate motifs (galactose, glucose, mannose and lactose, as well as galactose with a triethylene glycol spacer) to a btp (2,6-bis(1,2,3-triazol-4-yl)pyridine) scaffold. This scaffold, which possesses a C2 symmetry, is an excellent ligand for d-metal ions, and thus the formation of the Ru(ii)-centred glycoclusters 7 and 8Gal was achieved from 5 and 6Gal; each possessing four deprotected carbohydrates. Glycocluster 8Gal, which has a flexible spacer between the btp and galactose moieties, showed significant inhibition of P. aeruginosa bacterial biofilm formation. By contrast, glycocluster 7, which lacked the flexible linker, didn't show significant antimicrobial effects and neither does the ligand 6Gal alone. These results are proposed to arise from carbohydrate–lectin interactions with LecA, which are possible for the flexible metal-centred multivalent glycocluster. Metal-centred glycoclusters present a structurally versatile class of antimicrobial agent for P. aeruginosa, of which this is, to the best of our knowledge, the first example. Ruthenium-centred glycoclusters based on carbohydrate-functionalised bis(triazolyl)pyridine ligands show Pseudomonas aeruginosa biofilm inhibition, with activity that is dependent on ligand structure.![]()
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Affiliation(s)
- Ciaran O'Reilly
- School of Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin Ireland.,School of Medicine, University College Dublin Belfield Dublin 4 Ireland
| | - Salvador Blasco
- School of Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin Ireland
| | - Bina Parekh
- School of Medicine, University College Dublin Belfield Dublin 4 Ireland
| | - Helen Collins
- Department of Applied Science, Tallaght Campus, Technological University Dublin Ireland
| | - Gordon Cooke
- School of Medicine, University College Dublin Belfield Dublin 4 Ireland.,Department of Applied Science, Tallaght Campus, Technological University Dublin Ireland
| | | | - Joseph P Byrne
- School of Chemistry, National University of Ireland Galway University Road Galway Ireland
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4
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Rohse P, Weickert S, Drescher M, Wittmann V. Precipitation-free high-affinity multivalent binding by inline lectin ligands. Chem Sci 2020; 11:5227-5237. [PMID: 34122979 PMCID: PMC8159369 DOI: 10.1039/d0sc01744b] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Multivalent ligand-protein interactions are a key concept in biology mediating, for example, signalling and adhesion. Multivalent ligands often have tremendously increased binding affinities. However, they also can cause crosslinking of receptor molecules leading to precipitation of ligand-receptor complexes. Plaque formation due to precipitation is a known characteristic of numerous fatal diseases limiting a potential medical application of multivalent ligands with a precipitating binding mode. Here, we present a new design of high-potency multivalent ligands featuring an inline arrangement of ligand epitopes with exceptionally high binding affinities in the low nanomolar range. At the same time, we show with a multi-methodological approach that precipitation of the receptor is prevented. We distinguish distinct binding modes of the ligands, in particular we elucidate a unique chelating binding mode, where four receptor binding sites are simultaneously bridged by one multivalent ligand molecule. The new design concept of inline multivalent ligands, which we established for the well-investigated model lectin wheat germ agglutinin, has great potential for the development of high-potency multivalent inhibitors as future therapeutics.
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Affiliation(s)
- Philipp Rohse
- University of Konstanz, Department of Chemistry, Konstanz Research School Chemical Biology (KoRS-CB) Universitätsstraße 10 78457 Konstanz Germany
| | - Sabrina Weickert
- University of Konstanz, Department of Chemistry, Konstanz Research School Chemical Biology (KoRS-CB) Universitätsstraße 10 78457 Konstanz Germany
| | - Malte Drescher
- University of Konstanz, Department of Chemistry, Konstanz Research School Chemical Biology (KoRS-CB) Universitätsstraße 10 78457 Konstanz Germany
| | - Valentin Wittmann
- University of Konstanz, Department of Chemistry, Konstanz Research School Chemical Biology (KoRS-CB) Universitätsstraße 10 78457 Konstanz Germany
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5
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Schmidt S, Paul TJ, Strzelczyk AK. Interactive Polymer Gels as Biomimetic Sensors for Carbohydrate Interactions and Capture–Release Devices for Pathogens. MACROMOL CHEM PHYS 2019. [DOI: 10.1002/macp.201900323] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Stephan Schmidt
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf Universitätsstraße 1 40225 Dusseldorf Germany
| | - Tanja Janine Paul
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf Universitätsstraße 1 40225 Dusseldorf Germany
| | - Alexander Klaus Strzelczyk
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf Universitätsstraße 1 40225 Dusseldorf Germany
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6
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Camaleño de la Calle A, Gerke C, Chang XJ, Grafmüller A, Hartmann L, Schmidt S. Multivalent Interactions of Polyamide Based Sequence‐Controlled Glycomacromolecules with Concanavalin A. Macromol Biosci 2019; 19:e1900033. [DOI: 10.1002/mabi.201900033] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2019] [Revised: 03/21/2019] [Indexed: 01/08/2023]
Affiliation(s)
- Alberto Camaleño de la Calle
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf, Universitatsstraße 1 40225 Dusseldorf Germany
| | - Christoph Gerke
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf, Universitatsstraße 1 40225 Dusseldorf Germany
| | - Xi Jeffrey Chang
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf, Universitatsstraße 1 40225 Dusseldorf Germany
| | - Andrea Grafmüller
- Department of Theory and Bio‐SystemsMax Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14478 Potsdam Germany
| | - Laura Hartmann
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf, Universitatsstraße 1 40225 Dusseldorf Germany
| | - Stephan Schmidt
- Institute of Organic and Macromolecular ChemistryHeinrich‐Heine‐University Düsseldorf, Universitatsstraße 1 40225 Dusseldorf Germany
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7
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Li M, Wang KR, Yang JX, Peng YT, Liu YX, Zhang HX, Li XL. Supramolecular azasugar clusters based on an amphiphilic fatty-acid-deoxynojirimycin derivative as multivalent glycosidase inhibitors. J Mater Chem B 2019; 7:1379-1383. [DOI: 10.1039/c8tb03249a] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
A novel supramolecular multivalent glycosidase inhibitor was constructed based on the amphiphilic deoxynojirimycin derivative FA-DNJ.
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Affiliation(s)
- Min Li
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Ke-Rang Wang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Jian-Xing Yang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Ya-Tong Peng
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Yi-Xuan Liu
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Hong-Xin Zhang
- Medical Comprehensive Experimental Center of Hebei University
- Baoding
- China
| | - Xiao-Liu Li
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
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8
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Weickert S, Seitz T, Myers WK, Timmel CR, Drescher M, Wittmann V. Conformationally Unambiguous Spin Label for Exploring the Binding Site Topology of Multivalent Systems. J Phys Chem Lett 2018; 9:6131-6135. [PMID: 30284834 DOI: 10.1021/acs.jpclett.8b02243] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Multivalent carbohydrate-lectin interactions are a key concept in biological processes mediating, for example, signaling and adhesion. Binding affinities of multivalent ligands often increase by orders of magnitude compared to a monovalent binding situation. Thus, the design of multivalent ligands as potent inhibitors is a highly active field of research, where knowledge about the binding site topology is crucial. Here, we report a general strategy for precise distance measurements between the binding sites of multivalent target proteins using monovalent ligands. We designed and synthesized Monovalent, conformationally Unambiguously Spin-labeled LIgands (MUeSLI). Distances between the binding sites of the multivalent model lectin wheat germ agglutinin in complex with a GlcNAc-derived MUeSLI were determined using pulsed electron paramagnetic resonance spectroscopy. This approach is an efficient method for exploring multivalent systems with monovalent ligands, and it is readily transferable to other target proteins, allowing the targeted design of multivalent ligands without structural information available.
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Affiliation(s)
- Sabrina Weickert
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB) , University of Konstanz , 78457 Konstanz , Germany
| | - Torben Seitz
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB) , University of Konstanz , 78457 Konstanz , Germany
| | - William K Myers
- Department of Chemistry and Centre for Advanced Electron Spin Resonance (CAESR) , University of Oxford , South Parks Road , Oxford OX1 3QR , United Kingdom
| | - Christiane R Timmel
- Department of Chemistry and Centre for Advanced Electron Spin Resonance (CAESR) , University of Oxford , South Parks Road , Oxford OX1 3QR , United Kingdom
| | - Malte Drescher
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB) , University of Konstanz , 78457 Konstanz , Germany
| | - Valentin Wittmann
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB) , University of Konstanz , 78457 Konstanz , Germany
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9
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Bücher KS, Yan H, Creutznacher R, Ruoff K, Mallagaray A, Grafmüller A, Dirks JS, Kilic T, Weickert S, Rubailo A, Drescher M, Schmidt S, Hansman G, Peters T, Uetrecht C, Hartmann L. Fucose-Functionalized Precision Glycomacromolecules Targeting Human Norovirus Capsid Protein. Biomacromolecules 2018; 19:3714-3724. [PMID: 30071731 DOI: 10.1021/acs.biomac.8b00829] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Norovirus infection is the major cause of nonbacterial gastroenteritis in humans and has been the subject of numerous studies investigating the virus's biophysical properties and biochemical function with the aim of deriving novel and highly potent entry inhibitors to prevent infection. Recently, it has been shown that the protruding P domain dimer (P-dimer) of a GII.10 Norovirus strain exhibits two new binding sites for l-fucose in addition to the canonical binding sites. Thus, these sites provide a novel target for the design of multivalent fucose ligands as entry inhibitors of norovirus infections. In this current study, a first generation of multivalent fucose-functionalized glycomacromolecules was synthesized and applied as model structures to investigate the potential targeting of fucose binding sites in human norovirus P-dimer. Following previously established solid phase polymer synthesis, eight precision glycomacromolecules varying in number and position of fucose ligands along an oligo(amidoamine) backbone were obtained and then used in a series of binding studies applying native MS, NMR, and X-ray crystallography. We observed only one fucose per glycomacromolecule binding to one P-dimer resulting in similar binding affinities for all fucose-functionalized glycomacromolecules, which based on our current findings we attribute to the overall size of macromolecular ligands and possibly to steric hindrance.
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Affiliation(s)
- Katharina Susanne Bücher
- Heinrich-Heine-University Düsseldorf , Institute for Organic Chemistry and Macromolecular Chemistry , Düsseldorf , Germany
| | - Hao Yan
- Heinrich Pette Institute, Leibniz Institute for Experimental Virology , Hamburg , Germany
| | - Robert Creutznacher
- Institute of Chemistry and Metabolomics , University of Lübeck , Lübeck , Germany
| | - Kerstin Ruoff
- Schaller Research Group at the University of Heidelberg and the DKFZ, Heidelberg, Germany and Department of Infectious Diseases, Virology , University of Heidelberg , Heidelberg , Germany
| | - Alvaro Mallagaray
- Institute of Chemistry and Metabolomics , University of Lübeck , Lübeck , Germany
| | - Andrea Grafmüller
- Max-Planck-Institute of Colloids and Interfaces , Department of Theory and Bio-Systems , Potsdam , Germany
| | - Jan Sebastian Dirks
- Heinrich-Heine-University Düsseldorf , Institute for Organic Chemistry and Macromolecular Chemistry , Düsseldorf , Germany
| | - Turgay Kilic
- Schaller Research Group at the University of Heidelberg and the DKFZ, Heidelberg, Germany and Department of Infectious Diseases, Virology , University of Heidelberg , Heidelberg , Germany
| | - Sabrina Weickert
- University of Konstanz , Department of Chemistry and Konstanz Research School Chemical Biology , Konstanz , Germany
| | - Anna Rubailo
- University of Konstanz , Department of Chemistry and Konstanz Research School Chemical Biology , Konstanz , Germany
| | - Malte Drescher
- University of Konstanz , Department of Chemistry and Konstanz Research School Chemical Biology , Konstanz , Germany
| | - Stephan Schmidt
- Heinrich-Heine-University Düsseldorf , Institute for Organic Chemistry and Macromolecular Chemistry , Düsseldorf , Germany
| | - Grant Hansman
- Schaller Research Group at the University of Heidelberg and the DKFZ, Heidelberg, Germany and Department of Infectious Diseases, Virology , University of Heidelberg , Heidelberg , Germany
| | - Thomas Peters
- Institute of Chemistry and Metabolomics , University of Lübeck , Lübeck , Germany
| | - Charlotte Uetrecht
- Heinrich Pette Institute, Leibniz Institute for Experimental Virology , Hamburg , Germany.,European XFEL GmbH , Schenefeld , Germany
| | - Laura Hartmann
- Heinrich-Heine-University Düsseldorf , Institute for Organic Chemistry and Macromolecular Chemistry , Düsseldorf , Germany
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10
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Jacobi F, Camaleño de la Calle A, Boden S, Grafmüller A, Hartmann L, Schmidt S. Multivalent Binding of Precision Glycooligomers on Soft Glycocalyx Mimicking Hydrogels. Biomacromolecules 2018; 19:3479-3488. [DOI: 10.1021/acs.biomac.8b00790] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Fawad Jacobi
- Institute of Organic and Macromolecular Chemistry, Heinrich-Heine-University Düsseldorf, Universitatsstraße 1, 40225 Dusseldorf, Germany
| | - Alberto Camaleño de la Calle
- Institute of Organic and Macromolecular Chemistry, Heinrich-Heine-University Düsseldorf, Universitatsstraße 1, 40225 Dusseldorf, Germany
| | - Sophia Boden
- Institute of Organic and Macromolecular Chemistry, Heinrich-Heine-University Düsseldorf, Universitatsstraße 1, 40225 Dusseldorf, Germany
| | - Andrea Grafmüller
- Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14478 Potsdam, Germany
| | - Laura Hartmann
- Institute of Organic and Macromolecular Chemistry, Heinrich-Heine-University Düsseldorf, Universitatsstraße 1, 40225 Dusseldorf, Germany
| | - Stephan Schmidt
- Institute of Organic and Macromolecular Chemistry, Heinrich-Heine-University Düsseldorf, Universitatsstraße 1, 40225 Dusseldorf, Germany
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11
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A constraint scaffold enhances affinity of a bivalent N-acetylglucosamine ligand against wheat germ agglutinin. Bioorg Med Chem Lett 2018; 28:1704-1707. [DOI: 10.1016/j.bmcl.2018.04.047] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Revised: 04/13/2018] [Accepted: 04/18/2018] [Indexed: 11/21/2022]
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12
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Hollas MA, Webb SJ, Flitsch SL, Fielding AJ. A Bifunctional Spin Label for Ligand Recognition on Surfaces. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201703929] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Michael A. Hollas
- Department of Chemistry; Photon Science Institute; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Simon J. Webb
- Department of Chemistry; Manchester Institute of Biotechnology; University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Sabine L. Flitsch
- Department of Chemistry; Manchester Institute of Biotechnology; University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Alistair J. Fielding
- Department of Chemistry; Photon Science Institute; University of Manchester; Oxford Road Manchester M13 9PL UK
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13
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Hollas MA, Webb SJ, Flitsch SL, Fielding AJ. A Bifunctional Spin Label for Ligand Recognition on Surfaces. Angew Chem Int Ed Engl 2017; 56:9449-9453. [PMID: 28570782 PMCID: PMC5577508 DOI: 10.1002/anie.201703929] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2017] [Revised: 05/22/2017] [Indexed: 01/21/2023]
Abstract
In situ monitoring of biomolecular recognition, especially at surfaces, still presents a significant technical challenge. Electron paramagnetic resonance (EPR) of biomolecules spin-labeled with nitroxides can offer uniquely sensitive and selective insights into these processes, but new spin-labeling strategies are needed. The synthesis and study of a bromoacrylaldehyde spin label (BASL), which features two attachment points with orthogonal reactivity is reported. The first examples of mannose and biotin ligands coupled to aqueous carboxy-functionalized gold nanoparticles through a spin label are presented. EPR spectra were obtained for the spin-labeled ligands both free in solution and attached to nanoparticles. The labels were recognized by the mannose-binding lectin, Con A, and the biotin-binding protein avidin-peroxidase. Binding gave quantifiable changes in the EPR spectra from which binding profiles could be obtained that reflect the strength of binding in each case.
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Affiliation(s)
- Michael A Hollas
- Department of Chemistry, Photon Science Institute, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
| | - Simon J Webb
- Department of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Sabine L Flitsch
- Department of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Alistair J Fielding
- Department of Chemistry, Photon Science Institute, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
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14
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Pastorino F, Ponzoni M, Simone G. Molecular galactose-galectin association in neuroblastoma cells: An unconventional tool for qualitative/quantitative screening. Proteomics Clin Appl 2017; 11. [PMID: 28066995 DOI: 10.1002/prca.201600116] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Revised: 12/19/2016] [Accepted: 01/04/2017] [Indexed: 12/12/2022]
Abstract
PURPOSE Galectin decorates the cell membrane and forms an extracellular molecular association with galactoside units. Here, galactoside probes have been used to study galectin expression in neuroblastoma cells. The hypothesis behind this investigation has been that the molecular mechanisms by which glycans modulate neural metastatic cells involve a protein-carbohydrate association, galectin-galactose. EXPERIMENTAL DESIGN Preliminary screening to validate the hypothesis has been performed with galactose moieties anchored to beads. The molecular association has been studied by FACS. In vitro experiments reveal the molecular binding preferences of the metastatic neuroblastoma cells. Ex vivo, the galactose probes discriminate healthy tissues. The unconventional assay in microfluidics used in this study displayed results analogous to the above (GI-LI-N cell capture efficiency overcomes IMR-32). RESULTS At the point of equilibrium of shear and binding forces, the capture yield inside the chamber was measured to 60 ± 4.4% in GI-LI-N versus 40 ± 2.1% in IMR-32. Staining of the fished cells and subsequent conjugation with red beads bearing the galactose also have evidenced that microfluidics can be used to study and quantify the molecular association of galectin-galactose. Most importantly, a crucial insight for obtaining single-cell qualitative/quantitative glycome analysis has been achieved. Finally, the specificity of the assay performed in microfluidics is demonstrated by comparing GI-LI-N fishing efficiency in galactose and fucose environments. The residual adhesion to fucose confirmed the existence of receptors for this glycan and that its eventual unspecific binding (i.e. due to electrostatic interactions) is insignificant compared with the molecular binding. CONCLUSION Identification and understanding of this mechanism of discrimination can be relevant for diagnostic monitoring and for producing probes tailored to interfere with galectin activities associated with the malignant phenotype. Besides, the given strategy has implications for the rational design of galectin-specific ligands.
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Affiliation(s)
- Fabio Pastorino
- Laboratorio di Oncologia, Unità di Terapie Sperimentali, Istituto G Gaslini, Via G. Gaslini 5, 16147, Genova, Italy
| | - Mirco Ponzoni
- Laboratorio di Oncologia, Unità di Terapie Sperimentali, Istituto G Gaslini, Via G. Gaslini 5, 16147, Genova, Italy
| | - Giuseppina Simone
- Department of Mechanical Engineering, Northwestern Polytechnical University, 127 West Youyi Road, Xi'an Shaanxi, 710072, P.R. China.,University of Naples Federico II, Piazzale Tecchio 80, 80125 Napoli, Italy
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15
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Sultani HN, Haeri HH, Hinderberger D, Westermann B. Spin-labelled diketopiperazines and peptide-peptoid chimera by Ugi-multi-component-reactions. Org Biomol Chem 2016; 14:11336-11341. [PMID: 27878155 DOI: 10.1039/c6ob02194h] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
For the first time, spin-labelled coumpounds have been obtained by isonitrile-based multi component reactions (IMCRs). The typical IMCR Ugi-protocols offer a simple experimental setup allowing structural variety by which labelled diketopiperazines (DKPs) and peptide-peptoid chimera have been synthesized. The reaction keeps the paramagnetic spin label intact and offers a simple and versatile route to a large variety of new and chemically diverse spin labels.
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Affiliation(s)
- Haider N Sultani
- Leibniz-Institute of Plant Biochemistry, Department of Bioorganic Chemistry, Weinberg 3, 06120 Halle, Germany.
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16
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Rohse P, Wittmann V. Mechanistic Insight into Nanomolar Binding of Multivalent Neoglycopeptides to Wheat Germ Agglutinin. Chemistry 2016; 22:9724-33. [DOI: 10.1002/chem.201600657] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2016] [Indexed: 01/05/2023]
Affiliation(s)
- Philipp Rohse
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB); University of Konstanz; 78457 Konstanz Germany
| | - Valentin Wittmann
- Department of Chemistry and Konstanz Research School Chemical Biology (KoRS-CB); University of Konstanz; 78457 Konstanz Germany
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17
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Buffet K, Gillon E, Holler M, Nierengarten JF, Imberty A, Vincent SP. Fucofullerenes as tight ligands of RSL and LecB, two bacterial lectins. Org Biomol Chem 2015; 13:6482-92. [DOI: 10.1039/c5ob00689a] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
A series of water-soluble glycofullerenes containing up to 24 fucose residues were tested against the two bacterial lectins LecB and RSL, and C60(E)12 bearing 24 fucose residues appeared to be the best known inhibitor of both lectins to date.
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Affiliation(s)
- Kevin Buffet
- University of Namur (UNamur)
- Académie Louvain
- Département de Chimie
- Laboratoire de Chimie Bio-Organique
- B-5000 Namur
| | - Emilie Gillon
- CERMAV - CNRS (affiliated to Université Grenoble Alpes and ICMG)
- Grenoble
- France
| | - Michel Holler
- Laboratoire de Chimie des Matériaux Moléculaires
- Université de Strasbourg et CNRS (UMR 7509)
- Ecole Européenne de Chimie
- Polymères et Matériaux (ECPM)
- 67087 Strasbourg Cedex 2
| | - Jean-François Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires
- Université de Strasbourg et CNRS (UMR 7509)
- Ecole Européenne de Chimie
- Polymères et Matériaux (ECPM)
- 67087 Strasbourg Cedex 2
| | - Anne Imberty
- CERMAV - CNRS (affiliated to Université Grenoble Alpes and ICMG)
- Grenoble
- France
| | - Stéphane P. Vincent
- University of Namur (UNamur)
- Académie Louvain
- Département de Chimie
- Laboratoire de Chimie Bio-Organique
- B-5000 Namur
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18
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Fiore M, Berthet N, Marra A, Gillon E, Dumy P, Dondoni A, Imberty A, Renaudet O. Tetravalent glycocyclopeptide with nanomolar affinity to wheat germ agglutinin. Org Biomol Chem 2014; 11:7113-22. [PMID: 24057055 DOI: 10.1039/c3ob41203b] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A series of tetravalent glycocyclopeptides functionalized with GlcNAc was synthesized using copper(i)-catalysed alkyne-azide cycloaddition, oxime ligation and thiol-ene coupling. The binding ability of these compounds towards wheat germ agglutinin was studied by a competitive ELLA test and ITC experiments. While all compounds were able to inhibit WGA binding to GlcNAc-polymer coated surfaces at low concentrations, derivative 17 having an aliphatic spacer and thioether linkage was 4.9 × 10(6) times more potent on a per sugar basis than GlcNAc. This remarkably strong effect was confirmed by ITC experiments as these revealed an association constant of 9 nM for this compound, therefore presenting a gain of 200,000 times over GlcNAc. These results for compound 17 represent the highest binding properties reported for WGA.
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Affiliation(s)
- Michele Fiore
- Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607, Université Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France.
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19
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Chmielewski MJ, Buhler E, Candau J, Lehn JM. Multivalency by Self-Assembly: Binding of Concanavalin A to Metallosupramolecular Architectures Decorated with Multiple Carbohydrate Groups. Chemistry 2014; 20:6960-77. [DOI: 10.1002/chem.201304511] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2013] [Indexed: 12/17/2022]
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20
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Structural investigation of multivalent carbohydrate–protein interactions using synthetic biomolecules. Curr Opin Chem Biol 2013; 17:982-9. [DOI: 10.1016/j.cbpa.2013.10.010] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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21
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Sahu ID, McCarrick RM, Lorigan GA. Use of electron paramagnetic resonance to solve biochemical problems. Biochemistry 2013; 52:5967-84. [PMID: 23961941 PMCID: PMC3839053 DOI: 10.1021/bi400834a] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Electron paramagnetic resonance (EPR) spectroscopy is a very powerful biophysical tool that can provide valuable structural and dynamic information about a wide variety of biological systems. The intent of this review is to provide a general overview for biochemists and biological researchers of the most commonly used EPR methods and how these techniques can be used to answer important biological questions. The topics discussed could easily fill one or more textbooks; thus, we present a brief background on several important biological EPR techniques and an overview of several interesting studies that have successfully used EPR to solve pertinent biological problems. The review consists of the following sections: an introduction to EPR techniques, spin-labeling methods, and studies of naturally occurring organic radicals and EPR active transition metal systems that are presented as a series of case studies in which EPR spectroscopy has been used to greatly further our understanding of several important biological systems.
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Affiliation(s)
- Indra D. Sahu
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH
| | | | - Gary A. Lorigan
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH
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22
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Abstract
Glycans are key participants in biological processes ranging from reproduction to cellular communication to infection. Revealing glycan roles and the underlying molecular mechanisms by which glycans manifest their function requires access to glycan derivatives that vary systematically. To this end, glycopolymers (polymers bearing pendant carbohydrates) have emerged as valuable glycan analogs. Because glycopolymers can readily be synthesized, their overall shape can be varied, and they can be altered systematically to dissect the structural features that underpin their activities. This review provides examples in which glycopolymers have been used to effect carbohydrate-mediated signal transduction. Our objective is to illustrate how these powerful tools can reveal the molecular mechanisms that underlie carbohydrate-mediated signal transduction.
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Affiliation(s)
- Laura L Kiessling
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Ave, Madison, WI 53706, USA.
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23
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Pertici F, Varga N, van Duijn A, Rey-Carrizo M, Bernardi A, Pieters RJ. Efficient synthesis of phenylene-ethynylene rods and their use as rigid spacers in divalent inhibitors. Beilstein J Org Chem 2013; 9:215-22. [PMID: 23400701 PMCID: PMC3566787 DOI: 10.3762/bjoc.9.25] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2012] [Accepted: 01/09/2013] [Indexed: 01/27/2023] Open
Abstract
The synthesis of phenylene-ethynylene rods and their use as rigid spacers is described. Alternation of a Sonogashira reaction and silyl group cleavage was used to obtain rigid spacers with even and odd numbers of phenylene units. Preliminary applications of these rods in divalent systems are shown. Inhibition studies with Pseudomonas Aeruginosa lectin LecA showed that the rigid spacer proved greatly beneficial for the inhibitory potency.
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Affiliation(s)
- Francesca Pertici
- Department of Medicinal Chemistry and Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, P.O. Box 80082, 3508 TB Utrecht, The Netherlands
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24
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von Hagens T, Polyhach Y, Sajid M, Godt A, Jeschke G. Suppression of ghost distances in multiple-spin double electron–electron resonance. Phys Chem Chem Phys 2013; 15:5854-66. [DOI: 10.1039/c3cp44462g] [Citation(s) in RCA: 70] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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25
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Wittmann V, Pieters RJ. Bridging lectin binding sites by multivalent carbohydrates. Chem Soc Rev 2013; 42:4492-503. [DOI: 10.1039/c3cs60089k] [Citation(s) in RCA: 168] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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26
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Fasting C, Schalley CA, Weber M, Seitz O, Hecht S, Koksch B, Dernedde J, Graf C, Knapp EW, Haag R. Multivalenz als chemisches Organisations- und Wirkprinzip. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201201114] [Citation(s) in RCA: 164] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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27
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Fasting C, Schalley CA, Weber M, Seitz O, Hecht S, Koksch B, Dernedde J, Graf C, Knapp EW, Haag R. Multivalency as a Chemical Organization and Action Principle. Angew Chem Int Ed Engl 2012; 51:10472-98. [DOI: 10.1002/anie.201201114] [Citation(s) in RCA: 688] [Impact Index Per Article: 57.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2012] [Indexed: 12/26/2022]
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28
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Beckmann HSG, Möller HM, Wittmann V. High-affinity multivalent wheat germ agglutinin ligands by one-pot click reaction. Beilstein J Org Chem 2012; 8:819-26. [PMID: 23015829 PMCID: PMC3388869 DOI: 10.3762/bjoc.8.91] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2012] [Accepted: 05/21/2012] [Indexed: 01/30/2023] Open
Abstract
A series of six mono-, di-, and trivalent N,N’-diacetylchitobiose derivatives was conveniently prepared by employing a one-pot procedure for Cu(II)-catalyzed diazo transfer and Cu(I)-catalyzed azide–alkyne cycloaddition (CuAAC) starting from commercially available amines. These glycoclusters were probed for their binding potencies to the plant lectin wheat germ agglutinin (WGA) from Triticum vulgaris by an enzyme-linked lectin assay (ELLA) employing covalently immobilized N-acetylglucosamine (GlcNAc) as a reference ligand. IC50 values were in the low micromolar/high nanomolar range, depending on the linker between the two disaccharides. Binding enhancements β up to 1000 for the divalent ligands and 2800 for a trivalent WGA ligand, compared to N,N’-diacetylchitobiose as the corresponding monovalent ligand, were observed. Molecular modeling studies, in which the chitobiose moieties were fitted into crystallographically determined binding sites of WGA, correlate the binding enhancements of the multivalent ligands with their ability to bind to the protein in a chelating mode. The best WGA ligand is a trivalent cluster with an IC50 value of 220 nM. Calculated per mol of contained chitobiose, this is the best WGA ligand known so far.
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Affiliation(s)
- Henning S G Beckmann
- Fachbereich Chemie and Konstanz Research School Chemical Biology (KoRS-CB), Universität Konstanz, 78457 Konstanz, Germany
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29
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Pertici F, Pieters RJ. Potent divalent inhibitors with rigid glucose click spacers for Pseudomonas aeruginosa lectin LecA. Chem Commun (Camb) 2012; 48:4008-10. [PMID: 22428159 DOI: 10.1039/c2cc30234a] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The synthesis of a new rigid spacer based on carbohydrate-triazole repeating units and their incorporation into divalent systems is described. Inhibition studies showed that a well-matched system with a rigid spacer with flexible ends leads to the most potent inhibition of Pseudomonas aeruginosa lectin LecA.
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Affiliation(s)
- Francesca Pertici
- Department of Medicinal Chemistry and Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, P.O. Box 80082, 3508 TB Utrecht, The Netherlands
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