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In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein
African swine fever virus (ASFV) is the etiological agent of ASF, a fatal hemorrhagic fever that affects domestic pigs. There is currently no vaccine against ASFV, making it a significant threat to the pork industry. The ASFV genome sequence has been published; however, about half of ASFV open readi...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
PeerJ Inc.
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5825884/ https://www.ncbi.nlm.nih.gov/pubmed/29492339 http://dx.doi.org/10.7717/peerj.4396 |
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author | Kinyanyi, Dickson Obiero, George Obiero, George F.O. Amwayi, Peris Mwaniki, Stephen Wamalwa, Mark |
author_facet | Kinyanyi, Dickson Obiero, George Obiero, George F.O. Amwayi, Peris Mwaniki, Stephen Wamalwa, Mark |
author_sort | Kinyanyi, Dickson |
collection | PubMed |
description | African swine fever virus (ASFV) is the etiological agent of ASF, a fatal hemorrhagic fever that affects domestic pigs. There is currently no vaccine against ASFV, making it a significant threat to the pork industry. The ASFV genome sequence has been published; however, about half of ASFV open reading frames have not been characterized in terms of their structure and function despite being essential for our understanding of ASFV pathogenicity. The present study reports the three-dimensional structure and function of uncharacterized protein, pB263R (NP_042780.1), an open reading frame found in all ASFV strains. Sequence-based profiling and hidden Markov model search methods were used to identify remote pB263R homologs. Iterative Threading ASSEmbly Refinement (I-TASSER) was used to model the three-dimensional structure of pB263R. The posterior probability of fold family assignment was calculated using TM-fold, and biological function was assigned using TM-site, RaptorXBinding, Gene Ontology, and TM-align. Our results suggests that pB263R has the features of a TATA-binding protein and is thus likely to be involved in viral gene transcription. |
format | Online Article Text |
id | pubmed-5825884 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | PeerJ Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-58258842018-02-28 In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein Kinyanyi, Dickson Obiero, George Obiero, George F.O. Amwayi, Peris Mwaniki, Stephen Wamalwa, Mark PeerJ Biochemistry African swine fever virus (ASFV) is the etiological agent of ASF, a fatal hemorrhagic fever that affects domestic pigs. There is currently no vaccine against ASFV, making it a significant threat to the pork industry. The ASFV genome sequence has been published; however, about half of ASFV open reading frames have not been characterized in terms of their structure and function despite being essential for our understanding of ASFV pathogenicity. The present study reports the three-dimensional structure and function of uncharacterized protein, pB263R (NP_042780.1), an open reading frame found in all ASFV strains. Sequence-based profiling and hidden Markov model search methods were used to identify remote pB263R homologs. Iterative Threading ASSEmbly Refinement (I-TASSER) was used to model the three-dimensional structure of pB263R. The posterior probability of fold family assignment was calculated using TM-fold, and biological function was assigned using TM-site, RaptorXBinding, Gene Ontology, and TM-align. Our results suggests that pB263R has the features of a TATA-binding protein and is thus likely to be involved in viral gene transcription. PeerJ Inc. 2018-02-22 /pmc/articles/PMC5825884/ /pubmed/29492339 http://dx.doi.org/10.7717/peerj.4396 Text en ©2018 Kinyanyi et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited. |
spellingShingle | Biochemistry Kinyanyi, Dickson Obiero, George Obiero, George F.O. Amwayi, Peris Mwaniki, Stephen Wamalwa, Mark In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title | In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title_full | In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title_fullStr | In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title_full_unstemmed | In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title_short | In silico structural and functional prediction of African swine fever virus protein-B263R reveals features of a TATA-binding protein |
title_sort | in silico structural and functional prediction of african swine fever virus protein-b263r reveals features of a tata-binding protein |
topic | Biochemistry |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5825884/ https://www.ncbi.nlm.nih.gov/pubmed/29492339 http://dx.doi.org/10.7717/peerj.4396 |
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