Sequence Analysis and Structural Prediction of the Severe Acute Respiratory Syndrome Coronavirus nsp5
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Auteurs : Jia-Hai Lu [République populaire de Chine] ; Ding-Mei Zhang [République populaire de Chine] ; Guo-Ling Wang [République populaire de Chine] ; Zhong-Min Guo [République populaire de Chine] ; Juan Li [République populaire de Chine] ; Bing-Yan Tan [République populaire de Chine] ; Li-Ping Ou-Yang [République populaire de Chine] ; Wen-Hua Ling [République populaire de Chine] ; Xin-Bing Yu [République populaire de Chine] ; Nan-Shan Zhong [République populaire de Chine]Source :
- Acta Biochimica et Biophysica Sinica [ 1672-9145 ] ; 2005.
Abstract
The non-structural proteins (nsp or replicase proteins) of coronaviruses are relatively conserved and can be effective targets for drugs. Few studies have been conducted into the function of the severe acute respiratory syndrome coronavirus (SARS-CoV) nsp5. In this study, bioinformatics methods were employed to predict the secondary structure and construct 3-D models of the SARS-CoV GD strain nsp5. Sequencing and sequential comparison was performed to analyze the mutation trend of the polymerase nsp5 gene during the epidemic process using a nucleotide-nucleotide basic local alignment search tool (BLASTN) and a protein-protein basic local alignment search tool (BLASTP). The results indicated that the nsp5 gene was steady during the epidemic process and the protein was homologous with other coronavirus nsp5 proteins. The protein encoded by the nsp5 gene was expressed in COS-7 cells and analyzed by sodium dodecylsulfate-polyacrylamide gel electrophoresis (SDS-PAGE). This study provided the foundation for further exploration of the protein's biological function, and contributed to the search for anti-SARS-CoV drugs.
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DOI: 10.1111/j.1745-7270.2005.00066.x
PubMed: 15999208
PubMed Central: 7110076
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sortKey="Li, Juan" sort="Li, Juan" uniqKey="Li J" first="Juan" last="Li">Juan Li</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Tan, Bing Yan" sort="Tan, Bing Yan" uniqKey="Tan B" first="Bing-Yan" last="Tan">Bing-Yan Tan</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Ou Yang, Li Ping" sort="Ou Yang, Li Ping" uniqKey="Ou Yang L" first="Li-Ping" last="Ou-Yang">Li-Ping Ou-Yang</name><affiliation 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when="2005">2005</date><idno type="wicri:Area/Pmc/Corpus">000D51</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000D51</idno><idno type="wicri:Area/Pmc/Curation">000D51</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000D51</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Sequence Analysis and Structural Prediction of the Severe Acute Respiratory Syndrome Coronavirus nsp5</title><author><name sortKey="Lu, Jia Hai" sort="Lu, Jia Hai" uniqKey="Lu J" first="Jia-Hai" last="Lu">Jia-Hai Lu</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Zhang, Ding Mei" sort="Zhang, Ding Mei" uniqKey="Zhang D" first="Ding-Mei" last="Zhang">Ding-Mei Zhang</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Guo Ling" sort="Wang, Guo Ling" uniqKey="Wang G" first="Guo-Ling" last="Wang">Guo-Ling Wang</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Guo, Zhong Min" sort="Guo, Zhong Min" uniqKey="Guo Z" first="Zhong-Min" last="Guo">Zhong-Min Guo</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Li, Juan" sort="Li, Juan" uniqKey="Li J" first="Juan" last="Li">Juan Li</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Tan, Bing Yan" sort="Tan, Bing Yan" uniqKey="Tan B" first="Bing-Yan" last="Tan">Bing-Yan Tan</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Ou Yang, Li Ping" sort="Ou Yang, Li Ping" uniqKey="Ou Yang L" first="Li-Ping" last="Ou-Yang">Li-Ping Ou-Yang</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Ling, Wen Hua" sort="Ling, Wen Hua" uniqKey="Ling W" first="Wen-Hua" last="Ling">Wen-Hua Ling</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Yu, Xin Bing" sort="Yu, Xin Bing" uniqKey="Yu X" first="Xin-Bing" last="Yu">Xin-Bing Yu</name><affiliation wicri:level="1"><nlm:aff id="au1"><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510080</wicri:regionArea></affiliation></author><author><name sortKey="Zhong, Nan Shan" sort="Zhong, Nan Shan" uniqKey="Zhong N" first="Nan-Shan" last="Zhong">Nan-Shan Zhong</name><affiliation wicri:level="1"><nlm:aff id="au2"><institution>Guangzhou Institute of Respiratory Diseases, Guangzhou Medical College</institution><addr-line>Guangzhou 510120, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guangzhou 510120</wicri:regionArea></affiliation></author></analytic><series><title level="j">Acta Biochimica et Biophysica Sinica</title><idno type="ISSN">1672-9145</idno><idno type="eISSN">1745-7270</idno><imprint><date when="2005">2005</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><title>Abstract</title><p>The non-structural proteins (nsp or replicase proteins) of coronaviruses are relatively conserved and can be effective targets for drugs. Few studies have been conducted into the function of the severe acute respiratory syndrome coronavirus (SARS-CoV) nsp5. In this study, bioinformatics methods were employed to predict the secondary structure and construct 3-D models of the SARS-CoV GD strain nsp5. Sequencing and sequential comparison was performed to analyze the mutation trend of the polymerase nsp5 gene during the epidemic process using a nucleotide-nucleotide basic local alignment search tool (BLASTN) and a protein-protein basic local alignment search tool (BLASTP). The results indicated that the nsp5 gene was steady during the epidemic process and the protein was homologous with other coronavirus nsp5 proteins. The protein encoded by the nsp5 gene was expressed in COS-7 cells and analyzed by sodium dodecylsulfate-polyacrylamide gel electrophoresis (SDS-PAGE). This study provided the foundation for further exploration of the protein's biological function, and contributed to the search for anti-SARS-CoV drugs.</p></div></front></TEI><pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Acta Biochim Biophys Sin (Shanghai)</journal-id><journal-id journal-id-type="iso-abbrev">Acta Biochim. Biophys. Sin. (Shanghai)</journal-id><journal-id journal-id-type="hwp">abbs</journal-id><journal-id journal-id-type="publisher-id">abbs</journal-id><journal-title-group><journal-title>Acta Biochimica et Biophysica Sinica</journal-title></journal-title-group><issn pub-type="ppub">1672-9145</issn><issn pub-type="epub">1745-7270</issn><publisher><publisher-name>Blackwell Science Pty</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">15999208</article-id><article-id pub-id-type="pmc">7110076</article-id><article-id pub-id-type="doi">10.1111/j.1745-7270.2005.00066.x</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Papers</subject></subj-group></article-categories><title-group><article-title>Sequence Analysis and Structural Prediction of the Severe Acute Respiratory Syndrome Coronavirus nsp5</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Lu</surname><given-names>Jia-Hai</given-names></name><author-comment><title>#</title><p>These authors contributed equally to this work</p></author-comment><xref ref-type="aff" rid="au1">1</xref><xref ref-type="corresp" rid="cor1">*</xref><pmc-comment>jiahailu@yahoo.com.cn </pmc-comment>
</contrib><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>Ding-Mei</given-names></name><author-comment><title>#</title><p>These authors contributed equally to this work</p></author-comment><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Wang</surname><given-names>Guo-Ling</given-names></name><author-comment><title>#</title><p>These authors contributed equally to this work</p></author-comment><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Guo</surname><given-names>Zhong-Min</given-names></name><author-comment><title>#</title><p>These authors contributed equally to this work</p></author-comment><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Li</surname><given-names>Juan</given-names></name><author-comment><title>#</title><p>These authors contributed equally to this work</p></author-comment><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Tan</surname><given-names>Bing-Yan</given-names></name><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Ou-Yang</surname><given-names>Li-Ping</given-names></name><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Ling</surname><given-names>Wen-Hua</given-names></name><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Yu</surname><given-names>Xin-Bing</given-names></name><xref ref-type="aff" rid="au1">1</xref></contrib><contrib contrib-type="author"><name><surname>Zhong</surname><given-names>Nan-Shan</given-names></name><xref ref-type="aff" rid="au2">1</xref></contrib></contrib-group><contrib-group><contrib contrib-type="editor"><name><surname>Sun</surname><given-names>Bing</given-names></name></contrib></contrib-group><aff id="au1"><label>1</label><institution>The Public Health School of Sun Yat-Sen University</institution><addr-line>Guangzhou 510080, China;</addr-line></aff><aff id="au2"><label>1</label><institution>Guangzhou Institute of Respiratory Diseases, Guangzhou Medical College</institution><addr-line>Guangzhou 510120, China</addr-line></aff><author-notes><fn id="fn1"><label>#</label><p>These authors contributed equally to this work</p></fn><corresp id="cor1"><label>*</label>Corresponding author: Tel, <phone>86-20-87330605</phone>; Fax, <fax>86-20-87332438</fax>; E-mail, <email>jiahailu@yahoo.com.cn</email></corresp></author-notes><pub-date pub-type="ppub"><month>7</month><year>2005</year></pub-date><pub-date pub-type="epub" iso-8601-date="2005-07-01"><month>7</month><year>2005</year></pub-date><pub-date pub-type="pmc-release"><month>7</month><year>2005</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>37</volume><issue>7</issue><fpage>473</fpage><lpage>479</lpage><history><date date-type="received"><day>27</day><month>1</month><year>2005</year></date><date date-type="accepted"><day>25</day><month>4</month><year>2005</year></date></history><permissions><copyright-statement>© 2005 Institute of Biochemistry and Cell Biology, SIBS, CAS</copyright-statement><copyright-year>2005</copyright-year><license><license-p>This article is made available via the PMC Open Access Subset for unrestricted re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the COVID-19 pandemic or until permissions are revoked in writing. Upon expiration of these permissions, PMC is granted a perpetual license to make this article available via PMC and Europe PMC, consistent with existing copyright protections.</license-p></license></permissions><self-uri xlink:href="37-7-473.pdf"></self-uri><abstract><title>Abstract</title><p>The non-structural proteins (nsp or replicase proteins) of coronaviruses are relatively conserved and can be effective targets for drugs. Few studies have been conducted into the function of the severe acute respiratory syndrome coronavirus (SARS-CoV) nsp5. In this study, bioinformatics methods were employed to predict the secondary structure and construct 3-D models of the SARS-CoV GD strain nsp5. Sequencing and sequential comparison was performed to analyze the mutation trend of the polymerase nsp5 gene during the epidemic process using a nucleotide-nucleotide basic local alignment search tool (BLASTN) and a protein-protein basic local alignment search tool (BLASTP). The results indicated that the nsp5 gene was steady during the epidemic process and the protein was homologous with other coronavirus nsp5 proteins. The protein encoded by the nsp5 gene was expressed in COS-7 cells and analyzed by sodium dodecylsulfate-polyacrylamide gel electrophoresis (SDS-PAGE). This study provided the foundation for further exploration of the protein's biological function, and contributed to the search for anti-SARS-CoV drugs.</p></abstract><kwd-group><kwd>severe acute respiratory syndrome (SARS)</kwd><kwd>severe acute respiratory syndrome coronavirus(SARS-CoV)</kwd><kwd>non-structural protein (nsp)</kwd><kwd>replicase</kwd><kwd>secondary structure</kwd><kwd>3-D structure</kwd></kwd-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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