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Sori L, Pizzi A, Bergamaschi G, Gori A, Gautieri A, Demitri N, Soncini M, Metrangolo P. Computation meets experiment: identification of highly efficient fibrillating peptides. CrystEngComm 2023; 25:4503-4510. [PMID: 38014394 PMCID: PMC10424810 DOI: 10.1039/d3ce00495c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2023] [Accepted: 07/03/2023] [Indexed: 11/29/2023]
Abstract
Self-assembling peptides are of huge interest for biological, medical and nanotechnological applications. The enormous chemical variety that is available from the 20 amino acids offers potentially unlimited peptide sequences, but it is currently an issue to predict their supramolecular behavior in a reliable and cheap way. Herein we report a computational method to screen and forecast the aqueous self-assembly propensity of amyloidogenic pentapeptides. This method was found also as an interesting tool to predict peptide crystallinity, which may be of interest for the development of peptide based drugs.
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Affiliation(s)
- Lorenzo Sori
- Laboratory of Supramolecular and BioNano Materials (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano Via Luigi Mancinelli 7 20131 Milan Italy
| | - Andrea Pizzi
- Laboratory of Supramolecular and BioNano Materials (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano Via Luigi Mancinelli 7 20131 Milan Italy
| | - Greta Bergamaschi
- Istituto di Scienze e Tecnologie Chimiche - National Research Council of Italy (SCITEC-CNR) 20131 Milan Italy
| | - Alessandro Gori
- Istituto di Scienze e Tecnologie Chimiche - National Research Council of Italy (SCITEC-CNR) 20131 Milan Italy
| | - Alfonso Gautieri
- Department of Electronics, Information and Bioengineering, Politecnico di Milano 20131 Milan Italy
| | - Nicola Demitri
- Elettra - Sincrotrone Trieste S.S. 14 Km 163.5 in Area Science Park 34149 Basovizza - Trieste Italy
| | - Monica Soncini
- Department of Electronics, Information and Bioengineering, Politecnico di Milano 20131 Milan Italy
| | - Pierangelo Metrangolo
- Laboratory of Supramolecular and BioNano Materials (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano Via Luigi Mancinelli 7 20131 Milan Italy
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Pizzi A, Sori L, Pigliacelli C, Gautieri A, Andolina C, Bergamaschi G, Gori A, Panine P, Grande AM, Linder MB, Baldelli Bombelli F, Soncini M, Metrangolo P. Emergence of Elastic Properties in a Minimalist Resilin-Derived Heptapeptide upon Bromination. Small 2022; 18:e2200807. [PMID: 35723172 DOI: 10.1002/smll.202200807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Revised: 06/02/2022] [Indexed: 06/15/2023]
Abstract
Bromination is herein exploited to promote the emergence of elastic behavior in a short peptide-SDSYGAP-derived from resilin, a rubber-like protein exerting its role in the jumping and flight systems of insects. Elastic and resilient hydrogels are obtained, which also show self-healing behavior, thanks to the promoted non-covalent interactions that limit deformations and contribute to the structural recovery of the peptide-based hydrogel. In particular, halogen bonds may stabilize the β-sheet organization working as non-covalent cross-links between nearby peptide strands. Importantly, the unmodified peptide (i.e., wild type) does not show such properties. Thus, SDSY(3,5-Br)GAP is a novel minimalist peptide elastomer.
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Affiliation(s)
- Andrea Pizzi
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
| | - Lorenzo Sori
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
| | - Claudia Pigliacelli
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
- Hyber Center of Excellence, Department of Applied Physics, Aalto University, Puumiehenkuja2, Espoo, FI-00076, Finland
| | - Alfonso Gautieri
- Biomolecular Engineering Lab, Department of Electronics, Information, and Bioengineering, Politecnico di Milano, Milan, 20131, Italy
| | - Clara Andolina
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
- Hyber Center of Excellence, Department of Applied Physics, Aalto University, Puumiehenkuja2, Espoo, FI-00076, Finland
| | - Greta Bergamaschi
- Istituto di Scienze e Tecnologie Chimiche - National Research Council of Italy (SCITEC-CNR), Milan, 20131, Italy
| | - Alessandro Gori
- Istituto di Scienze e Tecnologie Chimiche - National Research Council of Italy (SCITEC-CNR), Milan, 20131, Italy
| | - Pierre Panine
- Xenocs SAS, 1-3 Allée du Nanomètre, Grenoble, 38000, France
| | - Antonio Mattia Grande
- Department of Aerospace Science and Technology, Politecnico di Milano, via La Masa 34, Milano, 20156, Italy
| | - Markus B Linder
- Department of Bioproducts and Biosystems, School of Chemical Engineering, Aalto University, P.O. Box 16100, Aalto, FI-00076, Finland
| | - Francesca Baldelli Bombelli
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
| | - Monica Soncini
- Biomolecular Engineering Lab, Department of Electronics, Information, and Bioengineering, Politecnico di Milano, Milan, 20131, Italy
| | - Pierangelo Metrangolo
- Laboratory of Supramolecular and Bio-Nanomaterials (SupraBioNanoLab)Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, Via Luigi Mancinelli 7, Milan, 20131, Italy
- Hyber Center of Excellence, Department of Applied Physics, Aalto University, Puumiehenkuja2, Espoo, FI-00076, Finland
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Sori L, Pizzi A, Demitri N, Terraneo G, Frontera A, Metrangolo P. Hydrogen- and halogen bond synergy in the self-assembly of 3,5-dihalo-tyrosines: structural and theoretical insights. CrystEngComm 2022. [DOI: 10.1039/d2ce00670g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Halogenation, generally introduced on aromatic aminoacids, is becoming a key supramolecular tool in peptides. Herein, we report the crystal structures and DFT study of two bis-halogenated tyrosines showing the subtle...
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Martinez Espinoza MI, Sori L, Pizzi A, Terraneo G, Moggio I, Arias E, Pozzi G, Orlandi S, Dichiarante V, Metrangolo P, Cavazzini M, Baldelli Bombelli F. BODIPY Dyes Bearing Multibranched Fluorinated Chains: Synthesis, Structural, and Spectroscopic Studies. Chemistry 2019; 25:9078-9087. [PMID: 31184410 DOI: 10.1002/chem.201901259] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2019] [Revised: 05/02/2019] [Indexed: 01/28/2023]
Abstract
A small series of boron-dipyrromethene (BODIPY) dyes, characterized by the presence of multibranched fluorinated residues, were designed and synthesized. The dyes differ in both the position (para-perfluoroalkoxy-substituted phenyl ring or boron functionalization) and number of magnetically equivalent fluorine atoms (27 or 54 fluorine atoms per molecule). Photophysical and crystallographic characterization of the synthesized BODIPYs was carried out to evaluate the effect of the presence of highly fluorinated moieties on the optical and morphological properties of such compounds.
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Affiliation(s)
- Maria I Martinez Espinoza
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Lorenzo Sori
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Andrea Pizzi
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Giancarlo Terraneo
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Ivana Moggio
- Departamento de Materiales Avanzados, Centro de Investigación en Química Aplicada, 25294, Saltillo, México
| | - Eduardo Arias
- Departamento de Materiales Avanzados, Centro de Investigación en Química Aplicada, 25294, Saltillo, México
| | - Gianluca Pozzi
- Institute of Molecular Science and Technologies (ISTM), National Research Council (CNR), 20133, Milan, Italy
| | - Simonetta Orlandi
- Institute of Molecular Science and Technologies (ISTM), National Research Council (CNR), 20133, Milan, Italy
| | - Valentina Dichiarante
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Pierangelo Metrangolo
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
| | - Marco Cavazzini
- Institute of Molecular Science and Technologies (ISTM), National Research Council (CNR), 20133, Milan, Italy
| | - Francesca Baldelli Bombelli
- Laboratory of Supramolecular and Bio-Nanomaterials, (SupraBioNanoLab), Department of Chemistry, Materials, and Chemical Engineering "Giulio Natta", Politecnico di Milano, 20131, Milan, Italy
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