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Discovery of G-quadruplex-forming sequences in SARS-CoV-2.
Ji, Danyang; Juhas, Mario; Tsang, Chi Man; Kwok, Chun Kit; Li, Yongshu; Zhang, Yang.
  • Ji D; Department of Chemistry, City University of Hong Kong, China.
  • Juhas M; universities of Oxford, Cambridge and Zurich. Currently, he works at the University of Fribourg. His work spans microbiology and synthetic biology.
  • Tsang CM; Department of Anatomical and Cellular Pathology, The Chinese University of Hong Kong, China.
  • Kwok CK; Department of Chemistry, City University of Hong Kong, China, and Shenzhen Research Institute of City University of Hong Kong, Shenzhen, China.
  • Li Y; Department of Anatomical and Cellular Pathology at The Chinese University of Hong Kong.
  • Zhang Y; College of Science, Harbin Institute of Technology Shenzhen.
Brief Bioinform ; 22(2): 1150-1160, 2021 03 22.
Article in English | MEDLINE | ID: covidwho-1352102
ABSTRACT
The outbreak caused by the novel coronavirus SARS-CoV-2 has been declared a global health emergency. G-quadruplex structures in genomes have long been considered essential for regulating a number of biological processes in a plethora of organisms. We have analyzed and identified 25 four contiguous GG runs (G2NxG2NyG2NzG2) in the SARS-CoV-2 RNA genome, suggesting putative G-quadruplex-forming sequences (PQSs). Detailed analysis of SARS-CoV-2 PQSs revealed their locations in the open reading frames of ORF1 ab, spike (S), ORF3a, membrane (M) and nucleocapsid (N) genes. Identical PQSs were also found in the other members of the Coronaviridae family. The top-ranked PQSs at positions 13385 and 24268 were confirmed to form RNA G-quadruplex structures in vitro by multiple spectroscopic assays. Furthermore, their direct interactions with viral helicase (nsp13) were determined by microscale thermophoresis. Molecular docking model suggests that nsp13 distorts the G-quadruplex structure by allowing the guanine bases to be flipped away from the guanine quartet planes. Targeting viral helicase and G-quadruplex structure represents an attractive approach for potentially inhibiting the SARS-CoV-2 virus.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: G-Quadruplexes / SARS-CoV-2 / COVID-19 Limits: Humans Language: English Journal: Brief Bioinform Journal subject: Biology / Medical Informatics Year: 2021 Document Type: Article Affiliation country: Bib

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Full text: Available Collection: International databases Database: MEDLINE Main subject: G-Quadruplexes / SARS-CoV-2 / COVID-19 Limits: Humans Language: English Journal: Brief Bioinform Journal subject: Biology / Medical Informatics Year: 2021 Document Type: Article Affiliation country: Bib