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Patra S, Erwin N, Winter R. Translational Dynamics of Lipidated Ras Proteins in the Presence of Crowding Agents and Compatible Osmolytes. Chemphyschem 2016; 17:2164-9. [PMID: 27028423 DOI: 10.1002/cphc.201600179] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Indexed: 11/07/2022]
Abstract
Ras proteins are small GTPases and are involved in transmitting signals that control cell growth, differentiation, and proliferation. Since the cell cytoplasm is crowded with different macromolecules, understanding the translational dynamics of Ras proteins in crowded environments is crucial to yielding deeper insight into their reactivity and function. Herein, the translational dynamics of lipidated N-Ras and K-Ras4B is studied in the bulk and in the presence of a macromolecular crowder (Ficoll) and the compatible osmolyte and microcrowder sucrose by fluorescence correlation spectroscopy. The results reveal that N-Ras forms dimers due to the presence of its lipid moiety in the hypervariable region, whereas K-Ras4B remains in its monomeric form in the bulk. Addition of a macromolecular crowding agent gradually favors clustering of the Ras proteins. In 20 wt % Ficoll N-Ras forms trimers and K-Ras4B dimers. Concentrations of sucrose up to 10 wt % foster formation of N-Ras trimers and K-Ras dimers as well. The results can be rationalized in terms of the excluded-volume effect, which enhances the association of the proteins, and, for the higher concentrations, by limited-hydration conditions. The results of this study shed new light on the association state of these proteins in a crowded environment. This is of particular interest for the Ras proteins, because their solution state-monomeric or clustered-influences their membrane-partitioning behavior and their interplay with cytosolic interaction partners.
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Affiliation(s)
- Satyajit Patra
- Department of Chemistry and Chemical Biology, Biophysical Chemistry, TU Dortmund University, Otto-Hahn-Strasse 4a, 44227, Dortmund, Germany
| | - Nelli Erwin
- Department of Chemistry and Chemical Biology, Biophysical Chemistry, TU Dortmund University, Otto-Hahn-Strasse 4a, 44227, Dortmund, Germany
| | - Roland Winter
- Department of Chemistry and Chemical Biology, Biophysical Chemistry, TU Dortmund University, Otto-Hahn-Strasse 4a, 44227, Dortmund, Germany.
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Chen YX, Koch S, Uhlenbrock K, Weise K, Das D, Gremer L, Brunsveld L, Wittinghofer A, Winter R, Triola G, Waldmann H. Synthesis of the Rheb and K-Ras4B GTPases. Angew Chem Int Ed Engl 2015; 49:6090-5. [PMID: 20652921 DOI: 10.1002/anie.201001884] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Yong-Xiang Chen
- Abteilung Chemische Biologie, Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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Kalbitzer HR, Rosnizeck IC, Munte CE, Narayanan SP, Kropf V, Spoerner M. Intrinsische allosterische Hemmung von Signalproteinen durch Stabilisierung gering besetzter, durch Hochdruck-NMR-Spektroskopie nachweisbarer Interaktionszustände. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201305741] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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4
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Kalbitzer HR, Rosnizeck IC, Munte CE, Narayanan SP, Kropf V, Spoerner M. Intrinsic Allosteric Inhibition of Signaling Proteins by Targeting Rare Interaction States Detected by High-Pressure NMR Spectroscopy. Angew Chem Int Ed Engl 2013; 52:14242-6. [DOI: 10.1002/anie.201305741] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2013] [Revised: 08/20/2013] [Indexed: 11/10/2022]
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Werkmüller A, Triola G, Waldmann H, Winter R. Rotational and translational dynamics of ras proteins upon binding to model membrane systems. Chemphyschem 2013; 14:3698-705. [PMID: 24115726 DOI: 10.1002/cphc.201300617] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2013] [Indexed: 01/16/2023]
Abstract
Plasma-membrane-associated Ras proteins typically control signal transduction processes. As nanoclustering and membrane viscosity sensing provide plausible signaling mechanisms, determination of the rotational and translational dynamics of membrane-bound Ras isoforms can help to link their dynamic mobility to their function. Herein, by using time-resolved fluorescence anisotropy and correlation spectroscopic measurements, we obtain the rotational-correlation time and the translational diffusion coefficient of lipidated boron-dipyrromethene-labeled Ras, both in bulk Ras and upon membrane binding. The results show that the second lipidation motif of N-Ras triggers dimer formation in bulk solution, whereas K-Ras4B is monomeric. Upon membrane binding, an essentially free rotation of the G-domain is observed, along with a high lateral mobility; the latter is essentially limited by the viscosity of the membrane and by lipid-mediated electrostatic interactions. This high diffusional mobility warrants rapid recognition-binding sequences in the membrane-bound state, thereby facilitating efficient interactions between the Ras proteins and scaffolding or effector proteins. The lipid-like rapid lateral diffusion observed here complies with in vivo data.
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Affiliation(s)
- Alexander Werkmüller
- Physical Chemistry I-Biophysical Chemistry, Faculty of Chemistry and Chemical Biology, TU Dortmund University, Otto-Hahn-Str. 6, 44227 Dortmund (Germany), Fax: (+49) 231 755 3901
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Rosnizeck IC, Spoerner M, Harsch T, Kreitner S, Filchtinski D, Herrmann C, Engel D, König B, Kalbitzer HR. Metal-Bis(2-picolyl)amine Complexes as State 1(T) Inhibitors of Activated Ras Protein. Angew Chem Int Ed Engl 2012; 51:10647-51. [DOI: 10.1002/anie.201204148] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2012] [Indexed: 11/10/2022]
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8
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Rosnizeck IC, Spoerner M, Harsch T, Kreitner S, Filchtinski D, Herrmann C, Engel D, König B, Kalbitzer HR. Metall-Bis(2-picolyl)amin-Komplexe als Zustand-1(T)-Inhibitoren für aktiviertes Ras-Protein. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201204148] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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9
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Görmer K, Bürger M, Kruijtzer JAW, Vetter I, Vartak N, Brunsveld L, Bastiaens PIH, Liskamp RMJ, Triola G, Waldmann H. Chemical-biological exploration of the limits of the Ras de- and repalmitoylating machinery. Chembiochem 2012; 13:1017-23. [PMID: 22488913 DOI: 10.1002/cbic.201200078] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2012] [Indexed: 11/12/2022]
Abstract
A dynamic de-/repalmitoylation cycle determines localization and activity of H- and N-Ras. This combined cellular de- and repalmitoylation machinery has been shown to be substrate tolerant--it accepts variation of amino acid sequence, structure and configuration. Here, semisynthetic Ras-proteins in which the C-terminal amino acids are replaced by peptoid residues are used to reveal the first limitations of substrate recognition by the de- and repalmitoylating machinery.
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Affiliation(s)
- Kristina Görmer
- Abteilung Chemische Biologie, Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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Hedberg C, Dekker FJ, Rusch M, Renner S, Wetzel S, Vartak N, Gerding-Reimers C, Bon RS, Bastiaens PIH, Waldmann H. Development of Highly Potent Inhibitors of the Ras-Targeting Human Acyl Protein Thioesterases Based on Substrate Similarity Design. Angew Chem Int Ed Engl 2011; 50:9832-7. [DOI: 10.1002/anie.201102965] [Citation(s) in RCA: 63] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2011] [Revised: 08/08/2011] [Indexed: 01/22/2023]
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11
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Rusch M, Zimmermann TJ, Bürger M, Dekker FJ, Görmer K, Triola G, Brockmeyer A, Janning P, Böttcher T, Sieber SA, Vetter IR, Hedberg C, Waldmann H. Identification of Acyl Protein Thioesterases 1 and 2 as the Cellular Targets of the Ras-Signaling Modulators Palmostatin B and M. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201102967] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Rusch M, Zimmermann TJ, Bürger M, Dekker FJ, Görmer K, Triola G, Brockmeyer A, Janning P, Böttcher T, Sieber SA, Vetter IR, Hedberg C, Waldmann H. Identification of acyl protein thioesterases 1 and 2 as the cellular targets of the Ras-signaling modulators palmostatin B and M. Angew Chem Int Ed Engl 2011; 50:9838-42. [PMID: 21905186 DOI: 10.1002/anie.201102967] [Citation(s) in RCA: 88] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2011] [Revised: 07/27/2011] [Indexed: 02/01/2023]
Abstract
Finding the target: activity-based proteomic profiling probes based on the depalmitoylation inhibitors palmostatin B and M have been synthesized and were found to target acyl protein thioesterase 1 (APT1) and 2 (APT2) in cells.
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Affiliation(s)
- Marion Rusch
- Max-Planck-Institut für Molekulare Physiologie, Abt. Chemische Biologie, Dortmund, Germany
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Hedberg C, Dekker FJ, Rusch M, Renner S, Wetzel S, Vartak N, Gerding-Reimers C, Bon RS, Bastiaens PIH, Waldmann H. Development of Highly Potent Inhibitors of the Ras-Targeting Human Acyl Protein Thioesterases Based on Substrate Similarity Design. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201102965] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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14
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Rosnizeck IC, Graf T, Spoerner M, Tränkle J, Filchtinski D, Herrmann C, Gremer L, Vetter IR, Wittinghofer A, König B, Kalbitzer HR. Stabilizing a weak binding state for effectors in the human ras protein by cyclen complexes. Angew Chem Int Ed Engl 2010; 49:3830-3. [PMID: 20401883 DOI: 10.1002/anie.200907002] [Citation(s) in RCA: 90] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Ina C Rosnizeck
- Universität Regensburg, Institut für Biophysik und Physikalische Biochemie, Universitätsstrasse 31, 93053 Regensburg, Germany
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Chen YX, Koch S, Uhlenbrock K, Weise K, Das D, Gremer L, Brunsveld L, Wittinghofer A, Winter R, Triola G, Waldmann H. Synthesis of the Rheb and K-Ras4B GTPases. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.201001884] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Triola G, Gerauer M, Görmer K, Brunsveld L, Waldmann H. Solid-Phase Synthesis of Lipidated Ras Peptides Employing the Ellman Sulfonamide Linker. Chemistry 2010; 16:9585-91. [DOI: 10.1002/chem.201001642] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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17
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Rosnizeck I, Graf T, Spoerner M, Tränkle J, Filchtinski D, Herrmann C, Gremer L, Vetter I, Wittinghofer A, König B, Kalbitzer H. Stabilisierung eines niederaffinen Zustands für Effektoren im menschlichen Ras-Protein durch Cyclenkomplexe. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.200907002] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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18
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Weinrich D, Lin PC, Jonkheijm P, Nguyen U, Schröder H, Niemeyer C, Alexandrov K, Goody R, Waldmann H. Oriented Immobilization of Farnesylated Proteins by the Thiol-Ene Reaction. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.200906190] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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19
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Weinrich D, Lin PC, Jonkheijm P, Nguyen U, Schröder H, Niemeyer C, Alexandrov K, Goody R, Waldmann H. Oriented Immobilization of Farnesylated Proteins by the Thiol-Ene Reaction. Angew Chem Int Ed Engl 2010; 49:1252-7. [DOI: 10.1002/anie.200906190] [Citation(s) in RCA: 88] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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20
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Knoth T, Warburg K, Katzka C, Rai A, Wolf A, Brockmeyer A, Janning P, Reubold TF, Eschenburg S, Manstein D, Hübel K, Kaiser M, Waldmann H. The Ras Pathway Modulator Melophlin A Targets Dynamins. Angew Chem Int Ed Engl 2009; 48:7240-5. [DOI: 10.1002/anie.200902023] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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21
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Knoth T, Warburg K, Katzka C, Rai A, Wolf A, Brockmeyer A, Janning P, Reubold TF, Eschenburg S, Manstein D, Hübel K, Kaiser M, Waldmann H. The Ras Pathway Modulator Melophlin A Targets Dynamins. Angew Chem Int Ed Engl 2009. [DOI: 10.1002/ange.200902023] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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22
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Müller C, Gomez-Zurita Frau MA, Ballinari D, Colombo S, Bitto A, Martegani E, Airoldi C, van Neuren AS, Stein M, Weiser J, Battistini C, Peri F. Design, Synthesis, and Biological Evaluation of Levoglucosenone-Derived Ras Activation Inhibitors. ChemMedChem 2009; 4:524-8. [DOI: 10.1002/cmdc.200800416] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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23
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Kohring K, Wiesner J, Altenkämper M, Sakowski J, Silber K, Hillebrecht A, Haebel P, Dahse HM, Ortmann R, Jomaa H, Klebe G, Schlitzer M. Development of Benzophenone-Based Farnesyltransferase Inhibitors as Novel Antimalarials. ChemMedChem 2008; 3:1217-31. [DOI: 10.1002/cmdc.200800043] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Jonkheijm P, Weinrich D, Köhn M, Engelkamp H, Christianen P, Kuhlmann J, Maan J, Nüsse D, Schroeder H, Wacker R, Breinbauer R, Niemeyer C, Waldmann H. Photochemical Surface Patterning by the Thiol-Ene Reaction. Angew Chem Int Ed Engl 2008; 47:4421-4. [DOI: 10.1002/anie.200800101] [Citation(s) in RCA: 169] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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25
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Jonkheijm P, Weinrich D, Köhn M, Engelkamp H, Christianen P, Kuhlmann J, Maan J, Nüsse D, Schroeder H, Wacker R, Breinbauer R, Niemeyer C, Waldmann H. Photochemical Surface Patterning by the Thiol-Ene Reaction. Angew Chem Int Ed Engl 2008. [DOI: 10.1002/ange.200800101] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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Airoldi C, Palmioli A, D'Urzo A, Colombo S, Vanoni M, Martegani E, Peri F. Glucose-Derived Ras Pathway Inhibitors: Evidence of Ras–Ligand Binding and Ras–GEF (Cdc25) Interaction Inhibition. Chembiochem 2007; 8:1376-9. [PMID: 17623307 DOI: 10.1002/cbic.200700185] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Cristina Airoldi
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milano, Italy
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Brunsveld L, Kuhlmann J, Alexandrov K, Wittinghofer A, Goody RS, Waldmann H. Lipidated ras and rab peptides and proteins--synthesis, structure, and function. Angew Chem Int Ed Engl 2007; 45:6622-46. [PMID: 17031879 DOI: 10.1002/anie.200600855] [Citation(s) in RCA: 122] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
Chemical biology can be defined as the study of biological phenomena from a chemical approach. Based on the analysis of relevant biological phenomena and their structural foundation, unsolved problems are identified and tackled through a combination of chemistry and biology. Thus, new synthetic methods and strategies are developed and employed for the construction of compounds that are used to investigate biological procedures. Solid-phase synthesis has emerged as the preferred method for the synthesis of lipidated peptides, which can be chemoselectively ligated to proteins of the Ras superfamily. The generated peptides and proteins have solved biological questions in the field of the Ras-superfamily GTPases that are not amendable to chemical or biological techniques alone.
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Affiliation(s)
- Luc Brunsveld
- Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Str. 11, 44227 Dortmund, Germany
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28
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Reuther G, Tan KT, Köhler J, Nowak C, Pampel A, Arnold K, Kuhlmann J, Waldmann H, Huster D. Structural model of the membrane-bound C terminus of lipid-modified human N-ras protein. Angew Chem Int Ed Engl 2007; 45:5387-90. [PMID: 16847854 DOI: 10.1002/anie.200504266] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Guido Reuther
- Nachwuchsgruppe "Strukturbiologie von Membranproteinen", Institut für Biotechnologie, Martin-Luther-Universität Halle-Wittenberg, Kurt-Mothes-Strasse 3, 06120 Halle, Germany
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Brunsveld L, Kuhlmann J, Alexandrov K, Wittinghofer A, Goody RS, Waldmann H. Lipidierte Ras- und Rab-Peptide und -Proteine: Synthese, Struktur und Funktion. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200600855] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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30
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Becker CFW, Wacker R, Bouschen W, Seidel R, Kolaric B, Lang P, Schroeder H, Müller O, Niemeyer CM, Spengler B, Goody RS, Engelhard M. Direct readout of protein-protein interactions by mass spectrometry from protein-DNA microarrays. Angew Chem Int Ed Engl 2006; 44:7635-9. [PMID: 16245381 DOI: 10.1002/anie.200502908] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Christian F W Becker
- Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany.
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31
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Deck P, Pendzialek D, Biel M, Wagner M, Popkirova B, Ludolph B, Kragol G, Kuhlmann J, Giannis A, Waldmann H. Development and biological evaluation of acyl protein thioesterase 1 (APT1) inhibitors. Angew Chem Int Ed Engl 2006; 44:4975-80. [PMID: 16003812 DOI: 10.1002/anie.200462625] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Patrick Deck
- Department of Chemical Biology, Max Planck Institute of Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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Reuther G, Tan KT, Köhler J, Nowak C, Pampel A, Arnold K, Kuhlmann J, Waldmann H, Huster D. Strukturmodell des membrangebundenen C-Terminus des humanen lipidmodifizierten N-Ras-Proteins. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200504266] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Becker CFW, Seidel R, Jahnz M, Bacia K, Niederhausen T, Alexandrov K, Schwille P, Goody RS, Engelhard M. C-Terminal Fluorescence Labeling of Proteins for Interaction Studies on the Single-Molecule Level. Chembiochem 2006; 7:891-5. [PMID: 16607669 DOI: 10.1002/cbic.200500535] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Christian F W Becker
- Max-Planck-Institut für molekulare Physiologie, Physikalische Biochemie, Otto-Hahn Strasse 11, 44227 Dortmund, Germany.
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Lumbierres M, Palomo JM, Kragol G, Waldmann H. Solid-phase synthesis of palmitoylated and farnesylated lipopeptides employing the fluoride-labile PTMSEL linker. Tetrahedron Lett 2006. [DOI: 10.1016/j.tetlet.2006.02.109] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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36
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Watzke A, Köhn M, Gutierrez-Rodriguez M, Wacker R, Schröder H, Breinbauer R, Kuhlmann J, Alexandrov K, Niemeyer CM, Goody RS, Waldmann H. Site-Selective Protein Immobilization by Staudinger Ligation. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200502057] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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37
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Watzke A, Köhn M, Gutierrez-Rodriguez M, Wacker R, Schröder H, Breinbauer R, Kuhlmann J, Alexandrov K, Niemeyer CM, Goody RS, Waldmann H. Site-Selective Protein Immobilization by Staudinger Ligation. Angew Chem Int Ed Engl 2006; 45:1408-12. [PMID: 16440394 DOI: 10.1002/anie.200502057] [Citation(s) in RCA: 116] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Anja Watzke
- Department of Chemical Biology, Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Strasse 11, 44 227 Dortmund, Germany
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Palomo JM, Lumbierres M, Waldmann H. Efficient Solid-Phase Lipopeptide Synthesis Employing the Ellman Sulfonamide Linker. Angew Chem Int Ed Engl 2006; 45:477-81. [PMID: 16331699 DOI: 10.1002/anie.200503298] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Jose M Palomo
- Max-Planck-Institut für Molekulare Physiologie, Abteilung Chemische Biologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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39
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Palomo JM, Lumbierres M, Waldmann H. Efficient Solid-Phase Lipopeptide Synthesis Employing the Ellman Sulfonamide Linker. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200503298] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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40
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Lumbierres M, Palomo JM, Kragol G, Roehrs S, Müller O, Waldmann H. Solid-Phase Synthesis of Lipidated Peptides. Chemistry 2005; 11:7405-15. [PMID: 16193522 DOI: 10.1002/chem.200500476] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
A new flexible and efficient methodology for the solid-phase synthesis of lipidated peptides has been developed. The approach is based on the use of previously synthesized building blocks and overcomes the limitations of previously reported methods, since long doubly lipidated peptides can be synthesized by using this route. Furthermore, it was thus possible to prepare a large number of N- and H-Ras peptides bearing a wide range of reporter and/or linking groups--efficient tools for the investigation of biological processes. In terms of efficiency and flexibility this solid-phase method is superior to the solution-phase synthesis. It gives pure peptides in multimilligram amounts within a much shorter time and with superior overall yield.
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Affiliation(s)
- Maria Lumbierres
- Max-Planck-Institut für molekulare Physiologie, Abteilung Chemische Biologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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41
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Peri F, Airoldi C, Colombo S, Martegani E, van Neuren AS, Stein M, Marinzi C, Nicotra F. Design, synthesis and biological evaluation of sugar-derived Ras inhibitors. Chembiochem 2005; 6:1839-48. [PMID: 16196015 DOI: 10.1002/cbic.200400420] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The design and synthesis of novel Ras inhibitors with a bicyclic scaffold derived from the natural sugar D-arabinose are presented. Molecular modelling showed that these ligands can bind Ras by accommodating the aromatic moieties and the phenylhydroxylamino group in a cavity near the Switch II region of the protein. All the synthetic compounds were active in inhibiting nucleotide exchange on p21 human Ras in vitro, and two of them selectively inhibited Ras-dependent cell growth in vivo.
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Affiliation(s)
- Francesco Peri
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milano, Italy.
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42
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Becker CFW, Wacker R, Bouschen W, Seidel R, Kolaric B, Lang P, Schroeder H, Müller O, Niemeyer CM, Spengler B, Goody RS, Engelhard M. Direkter Nachweis von Protein-Protein-Wechselwirkungen durch Massenspektrometrie an Protein-DNA-Mikroarrays. Angew Chem Int Ed Engl 2005. [DOI: 10.1002/ange.200502908] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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43
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Deck P, Pendzialek D, Biel M, Wagner M, Popkirova B, Ludolph B, Kragol G, Kuhlmann J, Giannis A, Waldmann H. Development and Biological Evaluation of Acyl Protein Thioesterase 1 (APT1) Inhibitors. Angew Chem Int Ed Engl 2005. [DOI: 10.1002/ange.200462625] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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44
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Reents R, Wagner M, Schlummer S, Kuhlmann J, Waldmann H. Synthesis and application of fluorescent ras proteins for live-cell imaging. Chembiochem 2005; 6:86-94. [PMID: 15637662 DOI: 10.1002/cbic.200400233] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Semisynthetic Ras proteins are efficient probes for cell-biology experiments. With a Bodipy FL fluorophore introduced at an appropriate site on the Ras peptide by solid-phase synthesis, the resulting Ras chimera is processed by the cellular machinery and the intracellular localization of the protein can then be visualized by means of confocal laser fluorescence microscopy at relatively low concentrations. The absence of a large N-terminal protein tag overcomes possible interferences in the interaction with cellular partner proteins. The fluorescence emission from Bodipy FL is continuous and disappears only after irreversible bleaching. These characteristics make Ras proteins with nonprotein fluorophores suitable for biophysical analysis. The easy accessibility of the lipopeptide moiety by chemical synthesis opens up numerous options for further biological investigations.
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Affiliation(s)
- Reinhard Reents
- Max-Planck-Institut für Molekulare Physiologie, Abteilung Chemische Biologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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45
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Soulère L, Aldrich C, Daumke O, Gail R, Kissau L, Wittinghofer A, Waldmann H. Synthesis of GTP-derived Ras ligands. Chembiochem 2005; 5:1448-53. [PMID: 15457534 DOI: 10.1002/cbic.200400133] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
A practical and convenient method for the synthesis of acid- and base-sensitive GTP analogues carrying a further substituent at the terminal phosphate has been developed. Key to the successful synthesis of these potential ligands of the Ras protein is the use of Pd0-sensitive allyl protecting groups in a one-pot synthesis that avoids evaporation steps. Initial biochemical analysis of a representative compound revealed that such GTP analogues can bind to Ras and might open up the possibility of developing small molecules that can act as deactivators of oncogenic Ras.
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Affiliation(s)
- Laurent Soulère
- Max-Planck-Institut für Molekulare Physiologie, Abteilung Chemische Biologie, Otto-Hahn-Strasse 11, 44227 Dortmund
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46
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Mitsch A, Altenkämper M, Sattler I, Schlitzer M. Non-Thiol Farnesyltransferase Inhibitors: Utilization of the Far Aryl Binding Site by Arylthienylacryloylaminobenzophenones. Arch Pharm (Weinheim) 2005; 338:9-17. [PMID: 15674808 DOI: 10.1002/ardp.200400886] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
We recently described two novel aryl binding sites of farnesyltransferase. The 4- and 5-arylsubstituted thienylacryloyl moieties turned out as appropriate substituents for our benzophenone-based AAX-peptidomimetic capable for occupying the far aryl binding site.
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Affiliation(s)
- Andreas Mitsch
- Institut für Pharmazeutische Chemie, Philipps-Universität Marburg, Marburg, Germany
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47
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Kragol G, Lumbierres M, Palomo JM, Waldmann H. Solid-Phase Synthesis of Lipidated Peptides. Angew Chem Int Ed Engl 2004; 43:5839-42. [PMID: 15523710 DOI: 10.1002/anie.200461150] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Goran Kragol
- Max-Planck-Institut für molekulare Physiologie, Abteilung Chemische Biologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany
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48
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Kragol G, Lumbierres M, Palomo JM, Waldmann H. Solid-Phase Synthesis of Lipidated Peptides. Angew Chem Int Ed Engl 2004. [DOI: 10.1002/ange.200461150] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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49
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Mitsch A, Wissner P, Silber K, Haebel P, Sattler I, Klebe G, Schlitzer M. Non-thiol farnesyltransferase inhibitors: N-(4-tolylacetylamino-3-benzoylphenyl)-3-arylfurylacrylic acid amides. Bioorg Med Chem 2004; 12:4585-600. [PMID: 15358286 DOI: 10.1016/j.bmc.2004.07.010] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2004] [Accepted: 07/01/2004] [Indexed: 11/28/2022]
Abstract
We have designed arylfurylacryl-substituted benzophenones as non-thiol farnesyltransferase inhibitors utilizing a novel aryl binding site of farnesyltransferase. These compounds display activity in the low nanomolar range.
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Affiliation(s)
- Andreas Mitsch
- Institut für Pharmazeutische Chemie, Philipps-Universität Marburg, Marbacher Weg 6, D-35032 Marburg, Germany
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50
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Abstract
Pepticinnamin E is a naturally occurring bisubstrate inhibitor of farnesyltransferase. Based on the structure of the natural product, a compound library was synthesized by variation of eight structural parameters. Following three different routes, a total of 51 analogues was synthesized on the polymeric support in 6-11-step parallel syntheses. Overall yields ranged from 3 to 63%, and the compounds were obtained with >90% purity.
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Affiliation(s)
- Michael Thutewohl
- Max-Planck-Institut für molekulare Physiologie, Abt. Chemische Biologie, Otto-Hahn-Str. 11, D-44227, Organische Chemie, Universität Dortmund, Dortmund und Fachbereich 3, Germany
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