61b800e44524d7d9041a206972a496c2 IntJouMol_a2022v23n23p14844.pdf 0121e3b6257e3e0741d8912d5031bb153f55c3a1 IntJouMol_a2022v23n23p14844.pdf 64ff81c9bd93f2472b161a0200c8dbf5516eefc284a35fba63fb409f6a75c7f4 IntJouMol_a2022v23n23p14844.pdf Title: Ligand-Based Discovery of a Small Molecule as Inhibitor of -Synuclein Amyloid Formation Subject: -Synuclein (-Syn) aggregates are implicated in Parkinson’s disease (PD), so inhibitors of -Syn aggregation have been intensively explored. It has been demonstrated that small molecules might be able to reduce -Syn aggregation in fibrils, thus exerting neuroprotective effects in models of PD. To expand our knowledge about the structural requirements for blocking the recognition process into the oligomeric assembly of -Syn aggregates, we performed a ligand-based virtual screening procedure using two well-known -Syn aggregation inhibitors, SynuClean-D and ZPD-2, as query compounds. A collection of thirty-four compounds bearing distinct chemical functionalities and mutual chemical features were studied in a Th-T fluorescence test, thus identifying 5-(2,6-dinitro-4-(trifluoromethyl)benzyl)-1-methyl-1H-tetrazole (named MeSC-04) as a potent -Syn amyloid formation inhibitor that demonstrated similar behavior when compared to SynuClean-D in the thioflavin-T-monitored kinetic assays, with both molecules reducing the number and size of amyloid fibrils, as evidenced by electron microscopy. Molecular modeling studies suggested the binding mode of MeSC-04 through the identification of putative druggable pockets on -syn fibrils and a subsequent consensus docking methodology. Overall, this work could furnish new insights in the development of -Syn amyloid inhibitors from synthetic sources. Keywords: alpha-synuclein; Parkinson’s disease; small molecule; virtual screening; binding site prediction; Th-T fluorescence assay Author: Laura De Luca, Serena Vittorio, Samuel Peña-Díaz, Giovanna Pitasi, Marc Fornt-Suñé, Federica Bucolo, Salvador Ventura and Rosaria Gitto Creator: LaTeX with hyperref Producer: pdfTeX-1.40.21 CreationDate: Sun Nov 27 11:33:00 2022 CET ModDate: Thu Dec 8 09:33:13 2022 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 14 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 3146836 bytes Optimized: no PDF version: 1.7 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- CZOINJ+EURB10 Type 1 Builtin yes yes no 10 0 YSPQJI+VnURWPalladioL-Bold Type 1 Custom yes yes no 14 0 BFLBCP+EURM10 Type 1 Builtin yes yes no 19 0 DGWWBX+URWPalladioL-Bold Type 1 Custom yes yes no 23 0 TWBYDT+URWPalladioL-Roma Type 1 Custom yes yes no 28 0 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Identity-H yes yes yes 296 0 DLHGLO+PalatinoLinotype TrueType WinAnsi yes yes no 302 0 DLHGMA+PalatinoLinotype,Italic TrueType WinAnsi yes yes no 305 0 DLHNEK+Calibri CID TrueType Identity-H yes yes yes 308 0 Jhove (Rel. 1.22.1, 2019-04-17) Date: 2023-09-23 02:34:07 CEST RepresentationInformation: IntJouMol_a2022v23n23p14844.pdf ReportingModule: PDF-hul, Rel. 1.12.1 (2019-04-17) LastModified: 2023-09-22 19:11:37 CEST Size: 3146836 Format: PDF Version: 1.7 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 507 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: PageLayout: SinglePage PageMode: UseNone Outlines: Item: Title: Introduction Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@262b2c86 Item: Title: Results and Discussion Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@371a67ec Children: Item: Title: Similarity-Based Virtual Screening (VS) Destination: 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Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@63440df3 Item: Title: References Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@3aeaafa6 Info: Title: Ligand-Based Discovery of a Small Molecule as Inhibitor of -Synuclein Amyloid Formation Author: Laura De Luca, Serena Vittorio, Samuel Peña-Díaz, Giovanna Pitasi, Marc Fornt-Suñé, Federica Bucolo, Salvador Ventura and Rosaria Gitto Subject: -Synuclein (-Syn) aggregates are implicated in Parkinson’s disease (PD), so inhibitors of -Syn aggregation have been intensively explored. It has been demonstrated that small molecules might be able to reduce -Syn aggregation in fibrils, thus exerting neuroprotective effects in models of PD. To expand our knowledge about the structural requirements for blocking the recognition process into the oligomeric assembly of -Syn aggregates, we performed a ligand-based virtual screening procedure using two well-known -Syn aggregation inhibitors, SynuClean-D and ZPD-2, as query compounds. A collection of thirty-four compounds bearing distinct chemical functionalities and mutual chemical features were studied in a Th-T fluorescence test, thus identifying 5-(2,6-dinitro-4-(trifluoromethyl)benzyl)-1-methyl-1H-tetrazole (named MeSC-04) as a potent -Syn amyloid formation inhibitor that demonstrated similar behavior when compared to SynuClean-D in the thioflavin-T-monitored kinetic assays, with both molecules reducing the number and size of amyloid fibrils, as evidenced by electron microscopy. Molecular modeling studies suggested the binding mode of MeSC-04 through the identification of putative druggable pockets on -syn fibrils and a subsequent consensus docking methodology. Overall, this work could furnish new insights in the development of -Syn amyloid inhibitors from synthetic sources. 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