1
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Ramberg KO, Engilberge S, Guagnini F, Crowley PB. Protein recognition by cucurbit[6]uril: high affinity N-terminal complexation. Org Biomol Chem 2021; 19:837-844. [PMID: 33406171 DOI: 10.1039/d0ob02356f] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The donut-shaped cucurbit[n]urils (Qn, n = 6-8) are rigid macrocyclic receptors with widespread use in protein recognition. To date, most applications have centred on the encapsulation of N-terminal aromatic residues by Q7 or Q8. Less attention has been placed on Q6, which can recognize lysine side chains due to its high affinity for alkylamines. In this work, we investigated protein-Q6 complexation by using NMR spectroscopy. Attempts to crystallize protein-Q6 complexes were thwarted by the crystallization of Q6. We studied four proteins that vary in size, net charge, and lysine content. In addition to Q6 interactions with specific Lys or dimethylated Lys residues, we report striking evidence for N-terminal recognition. High affinity (micromolar) binding occurred with the N-terminal Met-Lys motif present in one of the four model proteins. Engineering this feature into another model protein yielded a similar high affinity site. We also present evidence for Q8 binding at this N-terminal feature. These data expand the cucurbituril toolkit for protein sensing.
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Affiliation(s)
- Kiefer O Ramberg
- School of Chemistry, National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland.
| | - Sylvain Engilberge
- School of Chemistry, National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland.
| | - Francesca Guagnini
- School of Chemistry, National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland.
| | - Peter B Crowley
- School of Chemistry, National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland.
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2
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Liu Y, Zhang Y, Yu H, Liu Y. Cucurbituril‐Based Biomacromolecular Assemblies. Angew Chem Int Ed Engl 2020; 60:3870-3880. [DOI: 10.1002/anie.202009797] [Citation(s) in RCA: 52] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Indexed: 12/29/2022]
Affiliation(s)
- Yao‐Hua Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Ying‐Ming Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Hua‐Jiang Yu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Yu Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
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3
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Dong J, Davis AP. Molecular Recognition Mediated by Hydrogen Bonding in Aqueous Media. Angew Chem Int Ed Engl 2020; 60:8035-8048. [DOI: 10.1002/anie.202012315] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Revised: 10/14/2020] [Indexed: 12/16/2022]
Affiliation(s)
- Jinqiao Dong
- School of Chemistry University of Bristol Cantock's Close Bristol BS8 1TS UK
| | - Anthony P. Davis
- School of Chemistry University of Bristol Cantock's Close Bristol BS8 1TS UK
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4
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Dong J, Davis AP. Molecular Recognition Mediated by Hydrogen Bonding in Aqueous Media. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202012315] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Jinqiao Dong
- School of Chemistry University of Bristol Cantock's Close Bristol BS8 1TS UK
| | - Anthony P. Davis
- School of Chemistry University of Bristol Cantock's Close Bristol BS8 1TS UK
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5
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Affiliation(s)
- Yao‐Hua Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Ying‐Ming Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Hua‐Jiang Yu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Yu Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
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6
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Yang X, Wang R, Kermagoret A, Bardelang D. Oligomeric Cucurbituril Complexes: from Peculiar Assemblies to Emerging Applications. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202004622] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Xue Yang
- Aix Marseille Univ CNRS ICR Marseille France
| | - Ruibing Wang
- State Key Laboratory of Quality Research in Chinese Medicine Institute of Chinese Medical Sciences University of Macau, Taipa Macau China
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7
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Yang X, Wang R, Kermagoret A, Bardelang D. Oligomeric Cucurbituril Complexes: from Peculiar Assemblies to Emerging Applications. Angew Chem Int Ed Engl 2020; 59:21280-21292. [PMID: 32567745 DOI: 10.1002/anie.202004622] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Indexed: 12/16/2022]
Abstract
Proteins are an endless source of inspiration. By carefully tuning the amino-acid sequence of proteins, nature made them evolve from primary to quaternary structures, a property specific to protein oligomers and often crucial to accomplish their function. On the other hand, the synthetic macrocycles cucurbiturils (CBs) have shown outstanding recognition properties in water, and a growing number of (host)n :(guest)n supramolecular polymers involving CBs have been reported. However, the burgeoning field of discrete (n:n) host:guest oligomers has just started to attract attention. While 2:2 complexes are the major oligomers, 3:3 and up to 6:6 oligomers have been described, some associated with emerging applications, specific to the (n:n) arrangements. Design rules to target (n:n) host:guest oligomers are proposed toward new advanced host:guest systems.
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Affiliation(s)
- Xue Yang
- Aix Marseille Univ, CNRS, ICR, Marseille, France
| | - Ruibing Wang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Taipa, Macau, China
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8
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Vallet C, Aschmann D, Beuck C, Killa M, Meiners A, Mertel M, Ehlers M, Bayer P, Schmuck C, Giese M, Knauer SK. Functional Disruption of the Cancer-Relevant Interaction between Survivin and Histone H3 with a Guanidiniocarbonyl Pyrrole Ligand. Angew Chem Int Ed Engl 2020; 59:5567-5571. [PMID: 31916356 PMCID: PMC7155087 DOI: 10.1002/anie.201915400] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Indexed: 12/21/2022]
Abstract
The protein Survivin is highly upregulated in most cancers and considered to be a key player in carcinogenesis. We explored a supramolecular approach to address Survivin as a drug target by inhibiting the protein-protein interaction of Survivin and its functionally relevant binding partner Histone H3. Ligand L1 is based on the guanidiniocarbonyl pyrrole cation and serves as a highly specific anion binder in order to target the interaction between Survivin and Histone H3. NMR titration confirmed binding of L1 to Survivin's Histone H3 binding site. The inhibition of the Survivin-Histone H3 interaction and consequently a reduction of cancer cell proliferation were demonstrated by microscopic and cellular assays.
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Affiliation(s)
- Cecilia Vallet
- Department of Molecular Biology IIUniversity of Duisburg-EssenUniversitätsstraße 545141EssenGermany
| | - Dennis Aschmann
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Christine Beuck
- Department of Structural and Medicinal BiochemistryUniversity of Duisburg-EssenGermany
| | - Matthias Killa
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Annika Meiners
- Department of Molecular Biology IIUniversity of Duisburg-EssenUniversitätsstraße 545141EssenGermany
| | - Marcel Mertel
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Martin Ehlers
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Peter Bayer
- Department of Structural and Medicinal BiochemistryUniversity of Duisburg-EssenGermany
| | - Carsten Schmuck
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Michael Giese
- Institute for Organic ChemistryUniversity of Duisburg-EssenGermany
| | - Shirley K. Knauer
- Department of Molecular Biology IIUniversity of Duisburg-EssenUniversitätsstraße 545141EssenGermany
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9
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Gigante A, Sijbesma E, Sánchez‐Murcia PA, Hu X, Bier D, Bäcker S, Knauer S, Gago F, Ottmann C, Schmuck C. A Supramolecular Stabilizer of the 14-3-3ζ/ERα Protein-Protein Interaction with a Synergistic Mode of Action. Angew Chem Int Ed Engl 2020; 59:5284-5287. [PMID: 31814236 PMCID: PMC7155037 DOI: 10.1002/anie.201914517] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2019] [Indexed: 12/27/2022]
Abstract
We report on a stabilizer of the interaction between 14-3-3ζ and the Estrogen Receptor alpha (ERα). ERα is a driver in the majority of breast cancers and 14-3-3 proteins are negative regulators of this nuclear receptor, making the stabilization of this protein-protein interaction (PPI) an interesting strategy. The stabilizer (1) consists of three symmetric peptidic arms containing an arginine mimetic, previously described as the GCP motif. 1 stabilizes the 14-3-3ζ/ERα interaction synergistically with the natural product Fusicoccin-A and was thus hypothesized to bind to a different site. This is supported by computational analysis of 1 binding to the binary complex of 14-3-3 and an ERα-derived phosphopeptide. Furthermore, 1 shows selectivity towards 14-3-3ζ/ERα interaction over other 14-3-3 client-derived phosphomotifs. These data provide a solid support of a new binding mode for a supramolecular 14-3-3ζ/ERα PPI stabilizer.
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Affiliation(s)
- Alba Gigante
- Department of Organic ChemistryUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
| | - Eline Sijbesma
- Department of Biomedical EngineeringEindhoven University of TechnologyP.O. Box 5135600 MBEindhovenThe Netherlands
| | - Pedro A. Sánchez‐Murcia
- Departamento de Ciencias BiomédicasUniversidad de Alcalá28805Alcalá de HenaresSpain
- Present address: Institute of Theoretical ChemistryFaculty of ChemistryUniversity of ViennaWähringer Str. 171090ViennaAustria
| | - Xiaoyu Hu
- Department of Organic ChemistryUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
| | - David Bier
- Department of Organic ChemistryUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
- Department of Biomedical EngineeringEindhoven University of TechnologyP.O. Box 5135600 MBEindhovenThe Netherlands
| | - Sandra Bäcker
- Centre for Medical BiotechnologyUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
| | - Shirley Knauer
- Centre for Medical BiotechnologyUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
| | - Federico Gago
- Departamento de Ciencias BiomédicasUniversidad de Alcalá28805Alcalá de HenaresSpain
| | - Christian Ottmann
- Department of Organic ChemistryUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
- Department of Biomedical EngineeringEindhoven University of TechnologyP.O. Box 5135600 MBEindhovenThe Netherlands
| | - Carsten Schmuck
- Department of Organic ChemistryUniversity of Duisburg EssenUniversitätstr. 745141EssenGermany
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10
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Gigante A, Sijbesma E, Sánchez‐Murcia PA, Hu X, Bier D, Bäcker S, Knauer S, Gago F, Ottmann C, Schmuck C. A Supramolecular Stabilizer of the 14‐3‐3ζ/ERα Protein‐Protein Interaction with a Synergistic Mode of Action. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201914517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Alba Gigante
- Department of Organic ChemistryUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
| | - Eline Sijbesma
- Department of Biomedical EngineeringEindhoven University of Technology P.O. Box 513 5600 MB Eindhoven The Netherlands
| | - Pedro A. Sánchez‐Murcia
- Departamento de Ciencias BiomédicasUniversidad de Alcalá 28805 Alcalá de Henares Spain
- Present address: Institute of Theoretical ChemistryFaculty of ChemistryUniversity of Vienna Währinger Str. 17 1090 Vienna Austria
| | - Xiaoyu Hu
- Department of Organic ChemistryUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
| | - David Bier
- Department of Organic ChemistryUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
- Department of Biomedical EngineeringEindhoven University of Technology P.O. Box 513 5600 MB Eindhoven The Netherlands
| | - Sandra Bäcker
- Centre for Medical BiotechnologyUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
| | - Shirley Knauer
- Centre for Medical BiotechnologyUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
| | - Federico Gago
- Departamento de Ciencias BiomédicasUniversidad de Alcalá 28805 Alcalá de Henares Spain
| | - Christian Ottmann
- Department of Organic ChemistryUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
- Department of Biomedical EngineeringEindhoven University of Technology P.O. Box 513 5600 MB Eindhoven The Netherlands
| | - Carsten Schmuck
- Department of Organic ChemistryUniversity of Duisburg Essen Universitätstr. 7 45141 Essen Germany
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11
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Vallet C, Aschmann D, Beuck C, Killa M, Meiners A, Mertel M, Ehlers M, Bayer P, Schmuck C, Giese M, Knauer SK. Funktionelle Inhibition der krebsrelevanten Interaktion von Survivin und Histon H3 mit einem Guanidiniumcarbonylpyrrol‐Liganden. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201915400] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Cecilia Vallet
- Lehrstuhl für Molekularbiologie II Universität Duisburg-Essen Universitätsstraße 5 45141 Essen Deutschland
| | - Dennis Aschmann
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Christine Beuck
- Lehrstuhl für strukturelle und medizinische Biochemie Universität Duisburg-Essen Deutschland
| | - Matthias Killa
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Annika Meiners
- Lehrstuhl für Molekularbiologie II Universität Duisburg-Essen Universitätsstraße 5 45141 Essen Deutschland
| | - Marcel Mertel
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Martin Ehlers
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Peter Bayer
- Lehrstuhl für strukturelle und medizinische Biochemie Universität Duisburg-Essen Deutschland
| | - Carsten Schmuck
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Michael Giese
- Institut für organische Chemie Universität Duisburg-Essen Deutschland
| | - Shirley K. Knauer
- Lehrstuhl für Molekularbiologie II Universität Duisburg-Essen Universitätsstraße 5 45141 Essen Deutschland
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12
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Yin H, Cheng Q, Rosas R, Viel S, Monnier V, Charles L, Siri D, Gigmes D, Ouari O, Wang R, Kermagoret A, Bardelang D. A Cucurbit[8]uril 2:2 Complex with a Negative pK a Shift. Chemistry 2019; 25:12552-12559. [PMID: 31286592 DOI: 10.1002/chem.201902057] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2019] [Revised: 06/13/2019] [Indexed: 12/22/2022]
Abstract
A viologen derivative carrying a benzimidazole group (V-P-I 2+ ; viologen-phenylene-imidazole V-P-I) can be dimerized in water using cucurbit[8]uril (CB[8]) in the form of a 2:2 complex resulting in a negative shift of the guest pKa , by more than 1 pH unit, contrasting with the positive pKa shift usually observed for CB-based complexes. Whereas 2:2 complex protonation is unclear by NMR, silver cations have been used for probing the accessibility of the imidazole groups of the 2:2 complexes. The protonation capacity of the buried imidazole groups is reduced, suggesting that CB[8] could trigger proton release upon 2:2 complex formation. The addition of CB[8] to a solution containing V-P- I3+ indeed released protons as monitored by pH-metry and visualized by a coloured indicator. This property was used to induce a host/guest swapping, accompanied by a proton transfer, between V-P-I 3+ ⋅CB[7] and a CB[8] complex of 1-methyl-4-(4-pyridyl)pyridinium. The origin of this negative pKa shift is proposed to stand in an ideal charge state, and in the position of the two pH-responsive fragments inside the two CB[8] which, alike residues engulfed in proteins, favour the deprotonated form of the guest molecules. Such proton release triggered by a recognition event is reminiscent of several biological processes and may open new avenues toward bioinspired enzyme mimics catalyzing proton transfer or chemical reactions.
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Affiliation(s)
- Hang Yin
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Avenida da Universidade, Taipa, Macau, P. R. China
| | - Qian Cheng
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Avenida da Universidade, Taipa, Macau, P. R. China
| | - Roselyne Rosas
- Aix Marseille Univ, CNRS, Spectropole, FR 1739, Marseille, France
| | - Stéphane Viel
- Aix Marseille Univ, CNRS, ICR, Marseille, France.,Institut Universitaire de France, Paris, France
| | - Valérie Monnier
- Aix Marseille Univ, CNRS, Spectropole, FR 1739, Marseille, France
| | | | - Didier Siri
- Aix Marseille Univ, CNRS, ICR, Marseille, France
| | | | | | - Ruibing Wang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Avenida da Universidade, Taipa, Macau, P. R. China
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13
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Zhang Y, Liu J, Yu Q, Wen X, Liu Y. Targeted Polypeptide–Microtubule Aggregation with Cucurbit[8]uril for Enhanced Cell Apoptosis. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201903243] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Ying‐Ming Zhang
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Jiang‐Hua Liu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Qilin Yu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Xin Wen
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
- Department of Chemical BiologyNational Pesticide Engineering Research CenterNankai University Tianjin 300071 China
| | - Yu Liu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
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14
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Zhang Y, Liu J, Yu Q, Wen X, Liu Y. Targeted Polypeptide–Microtubule Aggregation with Cucurbit[8]uril for Enhanced Cell Apoptosis. Angew Chem Int Ed Engl 2019; 58:10553-10557. [DOI: 10.1002/anie.201903243] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2019] [Revised: 06/04/2019] [Indexed: 12/19/2022]
Affiliation(s)
- Ying‐Ming Zhang
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Jiang‐Hua Liu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Qilin Yu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
| | - Xin Wen
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
- Department of Chemical BiologyNational Pesticide Engineering Research CenterNankai University Tianjin 300071 China
| | - Yu Liu
- College of ChemistryState Key Laboratory of Elemento-Organic ChemistryNankai University Tianjin 300071 China
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15
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Bagheri Y, Shafiei F, Chedid S, Zhao B, You M. Lipid-DNA conjugates for cell membrane modification, analysis, and regulation. Supramol Chem 2019. [DOI: 10.1080/10610278.2019.1632454] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Yousef Bagheri
- Department of Chemistry, University of Massachusetts, Amherst, MA, USA
| | - Fatemeh Shafiei
- Department of Chemistry, University of Massachusetts, Amherst, MA, USA
| | - Sara Chedid
- Department of Chemistry, University of Massachusetts, Amherst, MA, USA
| | - Bin Zhao
- Department of Chemistry, University of Massachusetts, Amherst, MA, USA
| | - Mingxu You
- Department of Chemistry, University of Massachusetts, Amherst, MA, USA
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16
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Dang DT, van Onzen AHAM, Dorland YL, Brunsveld L. Cucurbit[8]uril Reactivation of an Inactivated Caspase-8 Mutant Reveals Differentiated Enzymatic Substrate Processing. Chembiochem 2018; 19:2490-2494. [PMID: 30300966 PMCID: PMC6391946 DOI: 10.1002/cbic.201800521] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Indexed: 01/26/2023]
Abstract
Caspase-8 constructs featuring an N-terminal FGG sequence allow for selective twofold recognition by cucurbit[8]uril, which leads to an increase of the enzymatic activity in a cucurbit[8]uril dose-dependent manner. This supramolecular switching has enabled for the first time the study of the same caspase-8 in its two extreme states; as full monomer and as cucurbit[8]uril induced dimer. A mutated, fully monomeric caspase-8 (D384A), which is enzymatically inactive towards its natural substrate caspase-3, could be fully reactivated upon addition of cucurbit[8]uril. In its monomeric state caspase-8 (D384A) still processes a small synthetic substrate, but not the natural caspase-3 substrate, highlighting the close interplay between protein dimerization and active site rearrangement for substrate selectivity. The ability to switch the caspase-8 activity by a supramolecular system thus provides a flexible approach to studying the activity of a protein at different oligomerization states.
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Affiliation(s)
- Dung T. Dang
- Laboratory of Chemical BiologyDepartment of Biomedical Engineering, andInstitute for Complex Molecular SystemsEindhoven University of TechnologyDen Dolech 25612AZEindhovenThe Netherlands
| | - Arthur H. A. M. van Onzen
- Laboratory of Chemical BiologyDepartment of Biomedical Engineering, andInstitute for Complex Molecular SystemsEindhoven University of TechnologyDen Dolech 25612AZEindhovenThe Netherlands
| | - Yvonne L. Dorland
- Laboratory of Chemical BiologyDepartment of Biomedical Engineering, andInstitute for Complex Molecular SystemsEindhoven University of TechnologyDen Dolech 25612AZEindhovenThe Netherlands
| | - Luc Brunsveld
- Laboratory of Chemical BiologyDepartment of Biomedical Engineering, andInstitute for Complex Molecular SystemsEindhoven University of TechnologyDen Dolech 25612AZEindhovenThe Netherlands
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17
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Yilmaz E, Bier D, Guillory X, Briels J, Ruiz-Blanco YB, Sanchez-Garcia E, Ottmann C, Kaiser M. Mono- and Bivalent 14-3-3 Inhibitors for Characterizing Supramolecular "Lysine Wrapping" of Oligoethylene Glycol (OEG) Moieties in Proteins. Chemistry 2018; 24:13807-13814. [PMID: 29924885 DOI: 10.1002/chem.201801074] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 06/15/2018] [Indexed: 12/26/2022]
Abstract
Previous studies have indicated the presence of defined interactions between oligo or poly(ethylene glycol) (OEG or PEG) and lysine residues. In these interactions, the OEG or PEG residues "wrap around" the lysine amino group, thereby enabling complexation of the amino group by the ether oxygen residues. The resulting biochemical binding affinity and thus biological relevance of this supramolecular interaction however remains unclear so far. Here, we report that OEG-containing phosphophenol ether inhibitors of 14-3-3 proteins also display such a "lysine-wrapping" binding mode. For better investigating the biochemical relevance of this binding mode, we made use of the dimeric nature of 14-3-3 proteins and designed as well as synthesized a set of bivalent 14-3-3 inhibitors for biochemical and X-ray crystallography-based structural studies. We found that all synthesized derivatives adapted the "lysine-wrapping" binding mode in the crystal structures; in solution, a different binding mode is however observed, most probably as the "lysine-wrapping" binding mode turned out to be a rather weak interaction. Accordingly, our studies demonstrate that structural studies of OEG-lysine interactions are difficult to interpret and their presence in structural studies may not automatically be correlated with a relevant interaction also in solution but requires further biochemical studies.
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Affiliation(s)
- Elvan Yilmaz
- Chemical Biology, Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstr. 2, 45117, Essen, Germany
| | - David Bier
- Department of Chemistry, University of Duisburg-Essen, Universitätsstr. 7, 45117, Essen, Germany.,Laboratory of Chemical Biology and Institute of, Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Den Dolech 2, 5612, AZ, Eindhoven, The Netherlands
| | - Xavier Guillory
- Department of Chemistry, University of Duisburg-Essen, Universitätsstr. 7, 45117, Essen, Germany.,Laboratory of Chemical Biology and Institute of, Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Den Dolech 2, 5612, AZ, Eindhoven, The Netherlands
| | - Jeroen Briels
- Laboratory of Chemical Biology and Institute of, Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Den Dolech 2, 5612, AZ, Eindhoven, The Netherlands
| | - Yasser B Ruiz-Blanco
- Computational Biochemistry, Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstr. 2, 45117, Essen, Germany
| | - Elsa Sanchez-Garcia
- Computational Biochemistry, Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstr. 2, 45117, Essen, Germany
| | - Christian Ottmann
- Department of Chemistry, University of Duisburg-Essen, Universitätsstr. 7, 45117, Essen, Germany.,Laboratory of Chemical Biology and Institute of, Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Den Dolech 2, 5612, AZ, Eindhoven, The Netherlands
| | - Markus Kaiser
- Chemical Biology, Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstr. 2, 45117, Essen, Germany
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18
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Li G, Yang WY, Zhao YF, Chen YX, Hong L, Li YM. Differential Modulation of the Aggregation of N-Terminal Truncated Aβ using Cucurbiturils. Chemistry 2018; 24:13647-13653. [DOI: 10.1002/chem.201802655] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Indexed: 12/31/2022]
Affiliation(s)
- Gao Li
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry; Tsinghua University; 100084 Beijing China
| | - Wu-Yue Yang
- Zhou Pei-Yuan Center for Applied Mathematics; Department of, Mathematical Sciences; Tsinghua University; 100084 Beijing China
| | - Yu-Fen Zhao
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry; Tsinghua University; 100084 Beijing China
| | - Yong-Xiang Chen
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry; Tsinghua University; 100084 Beijing China
| | - Liu Hong
- Zhou Pei-Yuan Center for Applied Mathematics; Department of, Mathematical Sciences; Tsinghua University; 100084 Beijing China
| | - Yan-Mei Li
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of Chemistry; Tsinghua University; 100084 Beijing China
- Beijing Institute for Brain Disorders; 100069 Beijing China
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19
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Zhang Y, Zhang N, Xiao K, Yu Q, Liu Y. Photo‐Controlled Reversible Microtubule Assembly Mediated by Paclitaxel‐Modified Cyclodextrin. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201804620] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Ying‐Ming Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Ni‐Yuan Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Kui Xiao
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Qilin Yu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Yu Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) Tianjin 300072 China
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20
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Zhang Y, Zhang N, Xiao K, Yu Q, Liu Y. Photo‐Controlled Reversible Microtubule Assembly Mediated by Paclitaxel‐Modified Cyclodextrin. Angew Chem Int Ed Engl 2018; 57:8649-8653. [DOI: 10.1002/anie.201804620] [Citation(s) in RCA: 80] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2018] [Indexed: 12/18/2022]
Affiliation(s)
- Ying‐Ming Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Ni‐Yuan Zhang
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Kui Xiao
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Qilin Yu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
| | - Yu Liu
- College of Chemistry State Key Laboratory of Elemento-Organic Chemistry Nankai University Tianjin 300071 China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) Tianjin 300072 China
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21
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Kotturi K, Masson E. Directional Self-Sorting with Cucurbit[8]uril Controlled by Allosteric π-π and Metal-Metal Interactions. Chemistry 2018; 24:8670-8678. [PMID: 29601113 DOI: 10.1002/chem.201800856] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2018] [Indexed: 12/14/2022]
Abstract
To maximize Coulombic interactions, cucurbit[8]uril (CB[8]) typically forms ternary complexes that distribute the positive charges of the pair of guests (if any) over both carbonylated portals of the macrocycle. We present here the first exception to this recognition pattern. Platinum(II) acetylides flanked by 4'-substituted terpyridyl ligands (tpy) form 2:1 complexes with CB[8] in an exclusively stacked head-to-head orientation in a water/acetonitrile mixture. The host encapsulates the pair of tpy substituents, and both positive Pt centers sit on top of each other at the same CB[8] rim, leaving the other rim free of any interaction with the guests. This dramatic charge imbalance between the CB[8] rims would be electrostatically penalizing, were it not for allosteric π-π interactions between the stacked tpy ligands, and possible metal-metal interactions between both Pt centers. When both tpy and acetylides are substituted with aryl units, the metal-ligand complexes form 2:2 assemblies with CB[8] in aqueous medium, and the directionality of the assembly (head-to-head or head-to-tail) can be controlled, both kinetically and thermodynamically.
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Affiliation(s)
- Kondalarao Kotturi
- Department of Chemistry and Biochemistry, Ohio University, 181 Clippinger Hall, Athens, Ohio, 45701, USA
| | - Eric Masson
- Department of Chemistry and Biochemistry, Ohio University, 181 Clippinger Hall, Athens, Ohio, 45701, USA
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22
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Guagnini F, Antonik PM, Rennie ML, O'Byrne P, Khan AR, Pinalli R, Dalcanale E, Crowley PB. Cucurbit[7]uril-Dimethyllysine Recognition in a Model Protein. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201803232] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Francesca Guagnini
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Paweł M. Antonik
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
| | - Martin L. Rennie
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
| | - Peter O'Byrne
- School of Biochemistry and Immunology; Trinity College Dublin; Dublin 2 Ireland
| | - Amir R. Khan
- School of Biochemistry and Immunology; Trinity College Dublin; Dublin 2 Ireland
| | - Roberta Pinalli
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Enrico Dalcanale
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Peter B. Crowley
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
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23
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Guagnini F, Antonik PM, Rennie ML, O'Byrne P, Khan AR, Pinalli R, Dalcanale E, Crowley PB. Cucurbit[7]uril-Dimethyllysine Recognition in a Model Protein. Angew Chem Int Ed Engl 2018; 57:7126-7130. [DOI: 10.1002/anie.201803232] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Indexed: 01/02/2023]
Affiliation(s)
- Francesca Guagnini
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Paweł M. Antonik
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
| | - Martin L. Rennie
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
| | - Peter O'Byrne
- School of Biochemistry and Immunology; Trinity College Dublin; Dublin 2 Ireland
| | - Amir R. Khan
- School of Biochemistry and Immunology; Trinity College Dublin; Dublin 2 Ireland
| | - Roberta Pinalli
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Enrico Dalcanale
- Dipartimento di Scienze Chimiche della Vita e della Sostenibilità Ambientale; Università di Parma and INSTM UdR Parma; Parco Area delle Scienze 17/A 43124 Parma Italy
| | - Peter B. Crowley
- School of Chemistry; National University of Ireland Galway; University Road Galway Ireland
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24
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Affiliation(s)
- Stephan Sinn
- Institute of Nanotechnology (INT); Karlsruhe Institute of Technology (KIT); Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Deutschland/Germany
| | - Frank Biedermann
- Institute of Nanotechnology (INT); Karlsruhe Institute of Technology (KIT); Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Deutschland/Germany
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25
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Doolan AM, Rennie ML, Crowley PB. Protein Recognition by Functionalized Sulfonatocalix[4]arenes. Chemistry 2017; 24:984-991. [PMID: 29125201 DOI: 10.1002/chem.201704931] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Indexed: 12/31/2022]
Abstract
The interactions of two mono-functionalized sulfonatocalix[4]arenes with cytochrome c were investigated by structural and thermodynamic methods. The replacement of a single sulfonate with either a bromo or a phenyl substituent resulted in altered recognition of cytochrome c as evidenced by X-ray crystallography. The bromo-substituted ligand yielded a new binding mode in which a self-encapsulated calixarene dimer contributed to crystal packing. This ligand also formed a weak halogen bond with the protein. The phenyl-substituted ligand was bound to Lys4 of cytochrome c, in a 1.7 Å resolution crystal structure. A dimeric packing arrangement mediated by ligand-ligand contacts in the crystal suggested a possible assembly mechanism. The different protein recognition properties of these calixarenes are discussed.
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Affiliation(s)
- Aishling M Doolan
- School of Chemistry, National University of Ireland Galway, University Road, Galway, Ireland
| | - Martin L Rennie
- School of Chemistry, National University of Ireland Galway, University Road, Galway, Ireland
| | - Peter B Crowley
- School of Chemistry, National University of Ireland Galway, University Road, Galway, Ireland
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