دورية أكاديمية
Abolished frameshifting for predicted structure-stabilizing SARS-CoV-2 mutants: Implications to alternative conformations and their statistical structural analyses.
| العنوان: | Abolished frameshifting for predicted structure-stabilizing SARS-CoV-2 mutants: Implications to alternative conformations and their statistical structural analyses. |
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| المؤلفون: | Dey A; NIPER-Raebareli; 41.abhishek@gmail.com., Yan S; NYU., Schlick T; New York University., Laederach A; UNC Chapel Hill. |
| المصدر: | RNA (New York, N.Y.) [RNA] 2024 Jul 31. Date of Electronic Publication: 2024 Jul 31. |
| Publication Model: | Ahead of Print |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9509184 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1469-9001 (Electronic) Linking ISSN: 13558382 NLM ISO Abbreviation: RNA Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: <2003->: Cold Spring Harbor, NY : Cold Spring Harbor Laboratory Press Original Publication: New York, NY : Cambridge University Press, c1995- |
| مستخلص: | The SARS-CoV-2 frameshifting element (FSE) has been intensely studied and explored as a therapeutic target for coronavirus diseases including COVID-19. Besides the intriguing virology, this small RNA is known to adopt many length-dependent conformations, as verified by multiple experimental and computational approaches. However, the role these alternative conformations play in the frameshifting mechanism and how to quantify this structural abundance has been an ongoing challenge. Here, we show by DMS and dual-luciferase functional assays that previously predicted FSE mutants (using the RAG graph theory approach) suppress structural transitions and abolish frameshifting. Furthermore, correlated mutation analysis of DMS data by three programs (DREEM, DRACO, and DANCE-MaP) reveals important differences in their estimation of specific RNA conformations, suggesting caution in the interpretation of such complex conformational landscapes. Overall, the abolished frameshifting in three different mutants confirms that all alternative conformations play a role in the pathways of ribosomal transition. (Published by Cold Spring Harbor Laboratory Press for the RNA Society.) |
| التعليقات: | Update of: bioRxiv. 2024 Mar 29:2024.03.28.586935. doi: 10.1101/2024.03.28.586935. (PMID: 38585719) |
| فهرسة مساهمة: | Keywords: DANCE-MaP, DREEM; DMS-MaP, SHAPE-MaP; DRACO; SARS-CoV-2, Frameshift element; ShapeKnots |
| تواريخ الأحداث: | Date Created: 20240731 Latest Revision: 20240806 |
| رمز التحديث: | 20240806 |
| DOI: | 10.1261/rna.080035.124 |
| PMID: | 39084880 |
| قاعدة البيانات: | MEDLINE |
| تدمد: | 1469-9001 |
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| DOI: | 10.1261/rna.080035.124 |