Bioinformatics Analysis Unveils Certain Mutations Implicated in Spike Structure Damage and Ligand-Binding Site of Severe Acute Respiratory Syndrome Coronavirus 2.

Bioinformatics and Biology Insights
Emre Aktas

Abstract

There are certain mutations related to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). In addition to these known mutations, other new mutations have been found across regions in this study. Based on the results, in which 4,326 SARS-CoV-2 whole sequences were used, some mutations are found to be peculiar with certain regions, while some other mutations are found in all regions. In Asia, mutations (3 different mutations in QLA46612 isolated from South Korea) were found in the same sequence. Although huge number of mutations are detected (more than 70 in Asia) by regions, according to bioinformatics tools, some of them which are G75V (isolated from North America), T95I (isolated from South Korea), G143V (isolated from North America), M177I (isolated from Asia), L293M (isolated from Asia), P295H (isolated from Asia), T393P (isolated from Europe), P507S (isolated from Asia), and D614G (isolated from all regions) (These color used only make correct) predicted a damage to spike' protein structure. Furthermore, this study also aimed to reveal how binding sites of ligands change if the spike protein structure is damaged, and whether more than one mutation affects ligand binding. Mutations that were predicted to damage the...Continue Reading

References

Jun 2, 2010·Nucleic Acids Research·Mark N WassMichael J E Sternberg
May 8, 2015·Nature Protocols·Lawrence A KelleyMichael J E Sternberg
May 4, 2018·Molecular Biology and Evolution·Sudhir KumarKoichiro Tamura
Apr 18, 2019·Journal of Molecular Biology·Sirawit IttisoponpisanMichael J E Sternberg
Mar 4, 2020·Nature Microbiology·UNKNOWN Coronaviridae Study Group of the International Committee on Taxonomy of Viruses
Mar 14, 2020·Journal of Medical Virology·Changtai WangZhenhua Zhang
Apr 23, 2020·Euro Surveillance : Bulletin Européen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin·Meng Lv On Behalf Of The Covid-Evidence And Recommendations Working Group
Apr 24, 2020·Journal of Translational Medicine·Maria PachettiRudy Ippodrino
Jun 20, 2020·Nature·Davide F RobbianiMichel C Nussenzweig

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Software Mentioned

MEGAX
3DLigandSite
Genome Detective Coronavirus Typing Tool
Phyre2
MISSENSE3D

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