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A comparative study on structural proteins of viruses that belong to the identical family

Recent studies have focused on the similarity between SARS Cov-2 and various viruses from the Coronaviridae family (such as MERS Cov,  SARS Cov and Bat Cov RaTG13) to uncover the mystery of SARS Cov-2. Specifically, some studies identified that the SARS Cov-2 is closely related to Bat Cov RaTG13 (a...

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Autores principales: Navish, A. A., Uthayakumar, R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9936937/
https://www.ncbi.nlm.nih.gov/pubmed/36846473
http://dx.doi.org/10.1140/epjs/s11734-023-00791-y
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author Navish, A. A.
Uthayakumar, R.
author_facet Navish, A. A.
Uthayakumar, R.
author_sort Navish, A. A.
collection PubMed
description Recent studies have focused on the similarity between SARS Cov-2 and various viruses from the Coronaviridae family (such as MERS Cov,  SARS Cov and Bat Cov RaTG13) to uncover the mystery of SARS Cov-2. Specifically, some studies identified that the SARS Cov-2 is closely related to Bat Cov RaTG13 (a SARS-related coronavirus found in bats) rather than the other viruses in that family. These studies are mainly focusing on the biological techniques to show the similarity between the SARS Cov-2 and other viruses. Examining proteins is not easy for common researchers unless for biologists. To rectify this flaw, we have to convert the protein to one of the known formats, which are easy to understand. Consequently, this study uses viral structural proteins to analyse the relationship between SARS Cov-2 and the rest of the coronavirus with the help of mathematical and statistical parameters and explores the various graph representations of MERS Cov,  SARS Cov,  Bat Cov RaTG13 and SARS Cov-2 structural proteins, such as zig–zag curve, Protein Contact Map ([Formula: see text] ) and Chaos Game Representation ([Formula: see text] ). Though these graph interpretations are visually similar, a slight variation between the graphs reflects their structural and functional differences. Thus, we use an elegant parameter known as the fractal dimension to observe their minor changes. According to the nature of the graph, we employ different types of fractal dimensions, namely mass dimension and box dimension. Furthermore, we perform the similarity tests with normalized cross-correlation and cosine similarity to assess the comparability of the [Formula: see text] and [Formula: see text] graphs. The acquired [Formula: see text] values are near the sequence identity between SARS Cov-2 and MERS Cov,  SARS Cov,  Bat Cov RaTG13.
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spelling pubmed-99369372023-02-21 A comparative study on structural proteins of viruses that belong to the identical family Navish, A. A. Uthayakumar, R. Eur Phys J Spec Top Regular Article Recent studies have focused on the similarity between SARS Cov-2 and various viruses from the Coronaviridae family (such as MERS Cov,  SARS Cov and Bat Cov RaTG13) to uncover the mystery of SARS Cov-2. Specifically, some studies identified that the SARS Cov-2 is closely related to Bat Cov RaTG13 (a SARS-related coronavirus found in bats) rather than the other viruses in that family. These studies are mainly focusing on the biological techniques to show the similarity between the SARS Cov-2 and other viruses. Examining proteins is not easy for common researchers unless for biologists. To rectify this flaw, we have to convert the protein to one of the known formats, which are easy to understand. Consequently, this study uses viral structural proteins to analyse the relationship between SARS Cov-2 and the rest of the coronavirus with the help of mathematical and statistical parameters and explores the various graph representations of MERS Cov,  SARS Cov,  Bat Cov RaTG13 and SARS Cov-2 structural proteins, such as zig–zag curve, Protein Contact Map ([Formula: see text] ) and Chaos Game Representation ([Formula: see text] ). Though these graph interpretations are visually similar, a slight variation between the graphs reflects their structural and functional differences. Thus, we use an elegant parameter known as the fractal dimension to observe their minor changes. According to the nature of the graph, we employ different types of fractal dimensions, namely mass dimension and box dimension. Furthermore, we perform the similarity tests with normalized cross-correlation and cosine similarity to assess the comparability of the [Formula: see text] and [Formula: see text] graphs. The acquired [Formula: see text] values are near the sequence identity between SARS Cov-2 and MERS Cov,  SARS Cov,  Bat Cov RaTG13. Springer Berlin Heidelberg 2023-02-17 /pmc/articles/PMC9936937/ /pubmed/36846473 http://dx.doi.org/10.1140/epjs/s11734-023-00791-y Text en © The Author(s), under exclusive licence to EDP Sciences, Springer-Verlag GmbH Germany, part of Springer Nature 2023, Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law. This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Regular Article
Navish, A. A.
Uthayakumar, R.
A comparative study on structural proteins of viruses that belong to the identical family
title A comparative study on structural proteins of viruses that belong to the identical family
title_full A comparative study on structural proteins of viruses that belong to the identical family
title_fullStr A comparative study on structural proteins of viruses that belong to the identical family
title_full_unstemmed A comparative study on structural proteins of viruses that belong to the identical family
title_short A comparative study on structural proteins of viruses that belong to the identical family
title_sort comparative study on structural proteins of viruses that belong to the identical family
topic Regular Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9936937/
https://www.ncbi.nlm.nih.gov/pubmed/36846473
http://dx.doi.org/10.1140/epjs/s11734-023-00791-y
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