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DBCOVP: A database of coronavirus virulent glycoproteins

Since the emergence of SARS‐CoV-1 (2002), novel coronaviruses have emerged periodically like the MERS‐ CoV (2012) and now, the SARS‐CoV-2 outbreak which has posed a global threat to public health. Although, this is the third zoonotic coronavirus breakout within the last two decades, there are only a...

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Autores principales: Sahoo, Susrita, Mahapatra, Soumya Ranjan, Parida, Bikram Kumar, Rath, Satyajit, Dehury, Budheswar, Raina, Vishakha, Mohakud, Nirmal Kumar, Misra, Namrata, Suar, Mrutyunjay
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier Ltd. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7679231/
https://www.ncbi.nlm.nih.gov/pubmed/33276297
http://dx.doi.org/10.1016/j.compbiomed.2020.104131
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author Sahoo, Susrita
Mahapatra, Soumya Ranjan
Parida, Bikram Kumar
Rath, Satyajit
Dehury, Budheswar
Raina, Vishakha
Mohakud, Nirmal Kumar
Misra, Namrata
Suar, Mrutyunjay
author_facet Sahoo, Susrita
Mahapatra, Soumya Ranjan
Parida, Bikram Kumar
Rath, Satyajit
Dehury, Budheswar
Raina, Vishakha
Mohakud, Nirmal Kumar
Misra, Namrata
Suar, Mrutyunjay
author_sort Sahoo, Susrita
collection PubMed
description Since the emergence of SARS‐CoV-1 (2002), novel coronaviruses have emerged periodically like the MERS‐ CoV (2012) and now, the SARS‐CoV-2 outbreak which has posed a global threat to public health. Although, this is the third zoonotic coronavirus breakout within the last two decades, there are only a few platforms that provide information about coronavirus genomes. None of them is specific for the virulence glycoproteins and complete sequence-structural features of these virulence factors across the betacoronavirus family including SARS-CoV-2 strains are lacking. Against this backdrop, we present DBCOVP (http://covp.immt.res.in/), the first manually-curated, web-based resource to provide extensive information on the complete repertoire of structural virulent glycoproteins from coronavirus genomes belonging to betacoronavirus genera. The database provides various sequence-structural properties in which users can browse and analyze information in different ways. Furthermore, many conserved T-cell and B-cell epitopes predicted for each protein are present that may perform a significant role in eliciting the humoral and cellular immune response. The tertiary structure of the epitopes together with the docked epitope-HLA binding-complex is made available to facilitate further analysis. DBCOVP presents an easy-to-use interface with in-built tools for similarity search, cross-genome comparison, phylogenetic, and multiple sequence alignment. DBCOVP will certainly be an important resource for experimental biologists engaged in coronavirus research studies and will aid in vaccine development.
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spelling pubmed-76792312020-11-23 DBCOVP: A database of coronavirus virulent glycoproteins Sahoo, Susrita Mahapatra, Soumya Ranjan Parida, Bikram Kumar Rath, Satyajit Dehury, Budheswar Raina, Vishakha Mohakud, Nirmal Kumar Misra, Namrata Suar, Mrutyunjay Comput Biol Med Article Since the emergence of SARS‐CoV-1 (2002), novel coronaviruses have emerged periodically like the MERS‐ CoV (2012) and now, the SARS‐CoV-2 outbreak which has posed a global threat to public health. Although, this is the third zoonotic coronavirus breakout within the last two decades, there are only a few platforms that provide information about coronavirus genomes. None of them is specific for the virulence glycoproteins and complete sequence-structural features of these virulence factors across the betacoronavirus family including SARS-CoV-2 strains are lacking. Against this backdrop, we present DBCOVP (http://covp.immt.res.in/), the first manually-curated, web-based resource to provide extensive information on the complete repertoire of structural virulent glycoproteins from coronavirus genomes belonging to betacoronavirus genera. The database provides various sequence-structural properties in which users can browse and analyze information in different ways. Furthermore, many conserved T-cell and B-cell epitopes predicted for each protein are present that may perform a significant role in eliciting the humoral and cellular immune response. The tertiary structure of the epitopes together with the docked epitope-HLA binding-complex is made available to facilitate further analysis. DBCOVP presents an easy-to-use interface with in-built tools for similarity search, cross-genome comparison, phylogenetic, and multiple sequence alignment. DBCOVP will certainly be an important resource for experimental biologists engaged in coronavirus research studies and will aid in vaccine development. Elsevier Ltd. 2021-02 2020-11-21 /pmc/articles/PMC7679231/ /pubmed/33276297 http://dx.doi.org/10.1016/j.compbiomed.2020.104131 Text en © 2020 Elsevier Ltd. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.
spellingShingle Article
Sahoo, Susrita
Mahapatra, Soumya Ranjan
Parida, Bikram Kumar
Rath, Satyajit
Dehury, Budheswar
Raina, Vishakha
Mohakud, Nirmal Kumar
Misra, Namrata
Suar, Mrutyunjay
DBCOVP: A database of coronavirus virulent glycoproteins
title DBCOVP: A database of coronavirus virulent glycoproteins
title_full DBCOVP: A database of coronavirus virulent glycoproteins
title_fullStr DBCOVP: A database of coronavirus virulent glycoproteins
title_full_unstemmed DBCOVP: A database of coronavirus virulent glycoproteins
title_short DBCOVP: A database of coronavirus virulent glycoproteins
title_sort dbcovp: a database of coronavirus virulent glycoproteins
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7679231/
https://www.ncbi.nlm.nih.gov/pubmed/33276297
http://dx.doi.org/10.1016/j.compbiomed.2020.104131
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