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Savva L, Platts JA. Computational investigation of copper-mediated conformational changes in α-synuclein dimer. Phys Chem Chem Phys 2024; 26:2926-2935. [PMID: 38193190 DOI: 10.1039/d3cp04697d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2024]
Abstract
We report molecular dynamics simulation of dimers of α-synuclein, the peptide closely associated with onset of Parkinson's disease, both as metal-free dimer and with inter-chain bridging provided by Cu(II) ions. Our investigation reveals that the presence of copper-induced inter-chain bridging not only stabilizes α-synuclein dimers, but also leads to enhanced β-sheet formation at critical regions within the N-terminal and NAC regions of the protein. These contacts are larger and longer-lived in the presence of copper, and as a result each peptide chain is more extended and less flexible than in the metal-free dimer. The persistence of these inter-peptide contacts underscores their significance in stabilising the dimers, potentially influencing the aggregation pathway. Moreover, the increased flexibility in the two termini, as well as the absence of persistent contacts in the metal-free dimer, correlates with the presence of amorphous aggregates. This phenomenon is known to mitigate fibrillation, while their absence in the metal-bound dimer suggests an increased propensity to form fibrils in the presence of copper ions.
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Affiliation(s)
- Loizos Savva
- School of Chemistry, Cardiff University, Park Place, Cardiff CF10 3AT, UK.
| | - James A Platts
- School of Chemistry, Cardiff University, Park Place, Cardiff CF10 3AT, UK.
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2
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Klose D, Vemulapalli SPB, Richman M, Rudnick S, Aisha V, Abayev M, Chemerovski M, Shviro M, Zitoun D, Majer K, Wili N, Goobes G, Griesinger C, Jeschke G, Rahimipour S. Cu 2+-Induced self-assembly and amyloid formation of a cyclic D,L-α-peptide: structure and function. Phys Chem Chem Phys 2022; 24:6699-6715. [PMID: 35234757 DOI: 10.1039/d1cp05415e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In a wide spectrum of neurodegenerative diseases, self-assembly of pathogenic proteins to cytotoxic intermediates is accelerated by the presence of metal ions such as Cu2+. Only low concentrations of these early transient oligomeric intermediates are present in a mixture of species during fibril formation, and hence information on the extent of structuring of these oligomers is still largely unknown. Here, we investigate dimers as the first intermediates in the Cu2+-driven aggregation of a cyclic D,L-α-peptide architecture. The unique structural and functional properties of this model system recapitulate the self-assembling properties of amyloidogenic proteins including β-sheet conformation and cross-interaction with pathogenic amyloids. We show that a histidine-rich cyclic D,L-α-octapeptide binds Cu2+ with high affinity and selectivity to generate amyloid-like cross-β-sheet structures. By taking advantage of backbone amide methylation to arrest the self-assembly at the dimeric stage, we obtain structural information and characterize the degree of local order for the dimer. We found that, while catalytic amounts of Cu2+ promote aggregation of the peptide to fibrillar structures, higher concentrations dose-dependently reduce fibrillization and lead to formation of spherical particles, showing self-assembly to different polymorphs. For the initial self-assembly step to the dimers, we found that Cu2+ is coordinated on average by two histidines, similar to self-assembled peptides, indicating that a similar binding interface is perpetuated during Cu2+-driven oligomerization. The dimer itself is found in heterogeneous conformations that undergo dynamic exchange, leading to the formation of different polymorphs at the initial stage of the aggregation process.
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Affiliation(s)
- Daniel Klose
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland.
| | - Sahithya Phani Babu Vemulapalli
- NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany. .,Institute for Chemistry and Biology of the Marine Environment, University of Oldenburg, 26129 Oldenburg, Germany
| | - Michal Richman
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Safra Rudnick
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel. .,Bar-Ilan Institute for Technology and Advanced Materials (BINA), Bar-Ilan University, Ramat-Gan 5290002, Israel
| | - Vered Aisha
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Meital Abayev
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Marina Chemerovski
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Meital Shviro
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel. .,Bar-Ilan Institute for Technology and Advanced Materials (BINA), Bar-Ilan University, Ramat-Gan 5290002, Israel
| | - David Zitoun
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel. .,Bar-Ilan Institute for Technology and Advanced Materials (BINA), Bar-Ilan University, Ramat-Gan 5290002, Israel
| | - Katharina Majer
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland.
| | - Nino Wili
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland.
| | - Gil Goobes
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Christian Griesinger
- NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany.
| | - Gunnar Jeschke
- Department of Chemistry and Applied Biosciences, ETH Zürich, 8093 Zürich, Switzerland.
| | - Shai Rahimipour
- Department of Chemistry, Bar-Ilan University, Ramat-Gan 5290002, Israel.
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Bossak-Ahmad K, Bal W, Frączyk T, Drew SC. Ternary Cu 2+ Complexes of Human Serum Albumin and Glycyl-l-histidyl-l-lysine. Inorg Chem 2021; 60:16927-16931. [PMID: 34730942 DOI: 10.1021/acs.inorgchem.1c03084] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Human serum albumin (HSA) and the growth factor glycyl-l-histidyl-l-lysine (GHK) bind Cu2+ as part of their normal functions. GHK is found at its highest concentration in the albumin-rich fraction of plasma, leading to speculation that HSA and GHK form a ternary Cu2+ complex. Although preliminary evidence was presented 40 years ago, the structure and stability of such a complex have remained elusive. Here, we show that two ternary Cu(GHK)NImHSA complexes are formed between GHK and the imino nitrogen (NIm) of His side chains of HSA. We identified His3 as one site of ternary complex formation (conditional binding constant cKCu(GHK)NImHis3Cu(GHK) = 2900 M-1 at pH 7.4), with the second site (cKCu(GHK)NImHisXCu(GHK) = 1700 M-1) likely being supplied by either His128 or His510. Together with the established role of HSA as a molecular shuttle in the blood, these complexes may aid the transport of the exchangeable Cu2+ pool and the functional form of GHK.
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Affiliation(s)
- Karolina Bossak-Ahmad
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw 02-106, Poland
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw 02-106, Poland
| | - Tomasz Frączyk
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw 02-106, Poland
| | - Simon C Drew
- Department of Medicine (Royal Melbourne Hospital), The University of Melbourne, Melbourne, Victoria 3010, Australia
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Ternary Cu(II) Complex with GHK Peptide and Cis-Urocanic Acid as a Potential Physiologically Functional Copper Chelate. Int J Mol Sci 2020; 21:ijms21176190. [PMID: 32867146 PMCID: PMC7503498 DOI: 10.3390/ijms21176190] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Revised: 08/19/2020] [Accepted: 08/25/2020] [Indexed: 01/06/2023] Open
Abstract
The tripeptide NH2–Gly–His–Lys–COOH (GHK), cis-urocanic acid (cis-UCA) and Cu(II) ions are physiological constituents of the human body and they co-occur (e.g., in the skin and the plasma). While GHK is known as Cu(II)-binding molecule, we found that urocanic acid also coordinates Cu(II) ions. Furthermore, both ligands create ternary Cu(II) complex being probably physiologically functional species. Regarding the natural concentrations of the studied molecules in some human tissues, together with the affinities reported here, we conclude that the ternary complex [GHK][Cu(II)][cis-urocanic acid] may be partly responsible for biological effects of GHK and urocanic acid described in the literature.
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Pernil R, Schleiff E. Metalloproteins in the Biology of Heterocysts. Life (Basel) 2019; 9:E32. [PMID: 30987221 PMCID: PMC6616624 DOI: 10.3390/life9020032] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Revised: 03/18/2019] [Accepted: 03/28/2019] [Indexed: 12/15/2022] Open
Abstract
Cyanobacteria are photoautotrophic microorganisms present in almost all ecologically niches on Earth. They exist as single-cell or filamentous forms and the latter often contain specialized cells for N₂ fixation known as heterocysts. Heterocysts arise from photosynthetic active vegetative cells by multiple morphological and physiological rearrangements including the absence of O₂ evolution and CO₂ fixation. The key function of this cell type is carried out by the metalloprotein complex known as nitrogenase. Additionally, many other important processes in heterocysts also depend on metalloproteins. This leads to a high metal demand exceeding the one of other bacteria in content and concentration during heterocyst development and in mature heterocysts. This review provides an overview on the current knowledge of the transition metals and metalloproteins required by heterocysts in heterocyst-forming cyanobacteria. It discusses the molecular, physiological, and physicochemical properties of metalloproteins involved in N₂ fixation, H₂ metabolism, electron transport chains, oxidative stress management, storage, energy metabolism, and metabolic networks in the diazotrophic filament. This provides a detailed and comprehensive picture on the heterocyst demands for Fe, Cu, Mo, Ni, Mn, V, and Zn as cofactors for metalloproteins and highlights the importance of such metalloproteins for the biology of cyanobacterial heterocysts.
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Affiliation(s)
- Rafael Pernil
- Institute for Molecular Biosciences, Goethe University Frankfurt, Max-von-Laue-Straβe 9, 60438 Frankfurt am Main, Germany.
| | - Enrico Schleiff
- Institute for Molecular Biosciences, Goethe University Frankfurt, Max-von-Laue-Straβe 9, 60438 Frankfurt am Main, Germany.
- Frankfurt Institute for Advanced Studies, Ruth-Moufang-Straße 1, 60438 Frankfurt am Main, Germany.
- Buchmann Institute for Molecular Life Sciences, Goethe University Frankfurt, Max-von-Laue-Straβe 15, 60438 Frankfurt am Main, Germany.
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Ramis R, Ortega-Castro J, Vilanova B, Adrover M, Frau J. Copper(II) Binding Sites in N-Terminally Acetylated α-Synuclein: A Theoretical Rationalization. J Phys Chem A 2017; 121:5711-5719. [DOI: 10.1021/acs.jpca.7b03165] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Rafael Ramis
- Departament de Química, Institut Universitari d’Investigació
en Ciències de la Salut (IUNICS), Universitat de les Illes Balears Palma de Mallorca, 07122 Palma, Spain
- Instituto de Investigación Sanitaria de Palma (IdISPA), 07010 Palma, Spain
| | - Joaquín Ortega-Castro
- Departament de Química, Institut Universitari d’Investigació
en Ciències de la Salut (IUNICS), Universitat de les Illes Balears Palma de Mallorca, 07122 Palma, Spain
- Instituto de Investigación Sanitaria de Palma (IdISPA), 07010 Palma, Spain
| | - Bartolomé Vilanova
- Departament de Química, Institut Universitari d’Investigació
en Ciències de la Salut (IUNICS), Universitat de les Illes Balears Palma de Mallorca, 07122 Palma, Spain
- Instituto de Investigación Sanitaria de Palma (IdISPA), 07010 Palma, Spain
| | - Miquel Adrover
- Departament de Química, Institut Universitari d’Investigació
en Ciències de la Salut (IUNICS), Universitat de les Illes Balears Palma de Mallorca, 07122 Palma, Spain
- Instituto de Investigación Sanitaria de Palma (IdISPA), 07010 Palma, Spain
| | - Juan Frau
- Departament de Química, Institut Universitari d’Investigació
en Ciències de la Salut (IUNICS), Universitat de les Illes Balears Palma de Mallorca, 07122 Palma, Spain
- Instituto de Investigación Sanitaria de Palma (IdISPA), 07010 Palma, Spain
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Torres-García P, Luna-Giles F, Bernalte-García Á, Platas-Iglesias C, Esteban-Gómez D, Viñuelas-Zahínos E. Effects of the substituents of pyrazole/thiazine ligands on the magnetic properties of chloro-bridged Cu(ii) complexes. NEW J CHEM 2017. [DOI: 10.1039/c7nj01581j] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
The structures and magnetic properties of monomeric and chloro-bridged dimeric CuII complexes can be modulated by steric hindrance.
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Affiliation(s)
- Pablo Torres-García
- Departamento de Química Orgánica e Inorgánica
- Facultad de Ciencias
- Universidad de Extremadura
- 06071 Badajoz
- Spain
| | - Francisco Luna-Giles
- Departamento de Química Orgánica e Inorgánica
- Facultad de Ciencias
- Universidad de Extremadura
- 06071 Badajoz
- Spain
| | - Álvaro Bernalte-García
- Departamento de Química Orgánica e Inorgánica
- Facultad de Ciencias
- Universidad de Extremadura
- 06071 Badajoz
- Spain
| | - Carlos Platas-Iglesias
- Centro de Investigaciones Científicas Avanzadas (CICA)
- Departamento de Química Fundamental
- Universidade da Coruña
- A Coruña
- Spain
| | - David Esteban-Gómez
- Centro de Investigaciones Científicas Avanzadas (CICA)
- Departamento de Química Fundamental
- Universidade da Coruña
- A Coruña
- Spain
| | - Emilio Viñuelas-Zahínos
- Departamento de Química Orgánica e Inorgánica
- Facultad de Ciencias
- Universidad de Extremadura
- 06071 Badajoz
- Spain
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