Variation analysis of the severe acute respiratory syndrome coronavirus putative non-structural protein 2 gene and construction of three-dimensional model.
Identifieur interne : 002732 ( PubMed/Curation ); précédent : 002731; suivant : 002733Variation analysis of the severe acute respiratory syndrome coronavirus putative non-structural protein 2 gene and construction of three-dimensional model.
Auteurs : Jia-Hai Lu [République populaire de Chine] ; Ding-Mei Zhang ; Guo-Ling Wang ; Zhong-Min Guo ; Chuan-Hai Zhang ; Bing-Yan Tan ; Li-Ping Ouyang ; Li Lin ; Yi-Min Liu ; Wei-Qing Chen ; Wen-Hua Ling ; Xin-Bing Yu ; Nan-Shan ZhongSource :
- Chinese medical journal [ 0366-6999 ] ; 2005.
Descripteurs français
- KwdFr :
- Animaux, Cellules COS, Cysteine endopeptidases (), Cysteine endopeptidases (biosynthèse), Cysteine endopeptidases (génétique), Diffraction des rayons X, Humains, Modèles moléculaires, Protéines recombinantes (biosynthèse), RT-PCR, Syndrome respiratoire aigu sévère (traitement médicamenteux), Variation génétique, Virus du SRAS (), Virus du SRAS (génétique).
- MESH :
- biosynthèse : Cysteine endopeptidases, Protéines recombinantes.
- génétique : Cysteine endopeptidases, Virus du SRAS.
- traitement médicamenteux : Syndrome respiratoire aigu sévère.
- Animaux, Cellules COS, Cysteine endopeptidases, Diffraction des rayons X, Humains, Modèles moléculaires, RT-PCR, Variation génétique, Virus du SRAS.
English descriptors
- KwdEn :
- Animals, COS Cells, Cysteine Endopeptidases (biosynthesis), Cysteine Endopeptidases (chemistry), Cysteine Endopeptidases (genetics), Genetic Variation, Humans, Models, Molecular, Recombinant Proteins (biosynthesis), Reverse Transcriptase Polymerase Chain Reaction, SARS Virus (chemistry), SARS Virus (genetics), Severe Acute Respiratory Syndrome (drug therapy), X-Ray Diffraction.
- MESH :
- chemical , biosynthesis : Cysteine Endopeptidases, Recombinant Proteins.
- chemical , chemistry : Cysteine Endopeptidases.
- chemical , genetics : Cysteine Endopeptidases.
- chemistry : SARS Virus.
- drug therapy : Severe Acute Respiratory Syndrome.
- genetics : SARS Virus.
- Animals, COS Cells, Genetic Variation, Humans, Models, Molecular, Reverse Transcriptase Polymerase Chain Reaction, X-Ray Diffraction.
Abstract
The rapid transmission and high mortality rate made severe acute respiratory syndrome (SARS) a global threat for which no efficacious therapy is available now. Without sufficient knowledge about the SARS coronavirus (SARS-CoV), it is impossible to define the candidate for the anti-SARS targets. The putative non-structural protein 2 (nsp2) (3CL(pro), following the nomenclature by Gao et al, also known as nsp5 in Snidjer et al) of SARS-CoV plays an important role in viral transcription and replication, and is an attractive target for anti-SARS drug development, so we carried on this study to have an insight into putative polymerase nsp2 of SARS-CoV Guangdong (GD) strain.
PubMed: 15899130
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Min" sort="Guo, Zhong Min" uniqKey="Guo Z" first="Zhong-Min" last="Guo">Zhong-Min Guo</name></author><author><name sortKey="Zhang, Chuan Hai" sort="Zhang, Chuan Hai" uniqKey="Zhang C" first="Chuan-Hai" last="Zhang">Chuan-Hai Zhang</name></author><author><name sortKey="Tan, Bing Yan" sort="Tan, Bing Yan" uniqKey="Tan B" first="Bing-Yan" last="Tan">Bing-Yan Tan</name></author><author><name sortKey="Ouyang, Li Ping" sort="Ouyang, Li Ping" uniqKey="Ouyang L" first="Li-Ping" last="Ouyang">Li-Ping Ouyang</name></author><author><name sortKey="Lin, Li" sort="Lin, Li" uniqKey="Lin L" first="Li" last="Lin">Li Lin</name></author><author><name sortKey="Liu, Yi Min" sort="Liu, Yi Min" uniqKey="Liu Y" first="Yi-Min" last="Liu">Yi-Min Liu</name></author><author><name sortKey="Chen, Wei Qing" sort="Chen, Wei Qing" uniqKey="Chen W" first="Wei-Qing" last="Chen">Wei-Qing Chen</name></author><author><name sortKey="Ling, Wen Hua" sort="Ling, Wen Hua" uniqKey="Ling W" first="Wen-Hua" last="Ling">Wen-Hua 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model.</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:affiliation>School of Public Health, Sun Yat-sen University, Guangzhou 510080, China. jiahailu@yahoo.com.cn</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Public Health, Sun Yat-sen University, 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></author><author><name sortKey="Wang, Guo Ling" sort="Wang, Guo Ling" uniqKey="Wang G" first="Guo-Ling" last="Wang">Guo-Ling Wang</name></author><author><name sortKey="Guo, Zhong Min" sort="Guo, Zhong Min" uniqKey="Guo Z" first="Zhong-Min" last="Guo">Zhong-Min Guo</name></author><author><name sortKey="Zhang, Chuan Hai" sort="Zhang, Chuan Hai" uniqKey="Zhang C" first="Chuan-Hai" last="Zhang">Chuan-Hai Zhang</name></author><author><name sortKey="Tan, Bing Yan" sort="Tan, Bing Yan" uniqKey="Tan B" first="Bing-Yan" last="Tan">Bing-Yan Tan</name></author><author><name sortKey="Ouyang, Li Ping" sort="Ouyang, Li Ping" uniqKey="Ouyang L" first="Li-Ping" last="Ouyang">Li-Ping Ouyang</name></author><author><name sortKey="Lin, Li" sort="Lin, Li" uniqKey="Lin L" first="Li" last="Lin">Li Lin</name></author><author><name sortKey="Liu, Yi Min" sort="Liu, Yi Min" uniqKey="Liu Y" first="Yi-Min" last="Liu">Yi-Min Liu</name></author><author><name sortKey="Chen, Wei Qing" sort="Chen, Wei Qing" uniqKey="Chen W" first="Wei-Qing" last="Chen">Wei-Qing Chen</name></author><author><name sortKey="Ling, Wen Hua" sort="Ling, Wen Hua" uniqKey="Ling W" first="Wen-Hua" last="Ling">Wen-Hua Ling</name></author><author><name sortKey="Yu, Xin Bing" sort="Yu, Xin Bing" uniqKey="Yu X" first="Xin-Bing" last="Yu">Xin-Bing Yu</name></author><author><name sortKey="Zhong, Nan Shan" sort="Zhong, Nan Shan" uniqKey="Zhong N" first="Nan-Shan" last="Zhong">Nan-Shan Zhong</name></author></analytic><series><title level="j">Chinese medical journal</title><idno type="ISSN">0366-6999</idno><imprint><date when="2005" type="published">2005</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>COS Cells</term><term>Cysteine Endopeptidases (biosynthesis)</term><term>Cysteine Endopeptidases (chemistry)</term><term>Cysteine Endopeptidases (genetics)</term><term>Genetic Variation</term><term>Humans</term><term>Models, Molecular</term><term>Recombinant Proteins (biosynthesis)</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>SARS Virus (chemistry)</term><term>SARS Virus (genetics)</term><term>Severe Acute Respiratory Syndrome (drug therapy)</term><term>X-Ray Diffraction</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Cellules COS</term><term>Cysteine endopeptidases ()</term><term>Cysteine endopeptidases (biosynthèse)</term><term>Cysteine endopeptidases (génétique)</term><term>Diffraction des rayons X</term><term>Humains</term><term>Modèles moléculaires</term><term>Protéines recombinantes (biosynthèse)</term><term>RT-PCR</term><term>Syndrome respiratoire aigu sévère (traitement médicamenteux)</term><term>Variation génétique</term><term>Virus du SRAS ()</term><term>Virus du SRAS (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>Cysteine Endopeptidases</term><term>Recombinant Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Cysteine Endopeptidases</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Cysteine Endopeptidases</term></keywords><keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>Cysteine endopeptidases</term><term>Protéines recombinantes</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="drug therapy" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Cysteine endopeptidases</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="traitement médicamenteux" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>COS Cells</term><term>Genetic Variation</term><term>Humans</term><term>Models, Molecular</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>X-Ray Diffraction</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Cellules COS</term><term>Cysteine endopeptidases</term><term>Diffraction des rayons X</term><term>Humains</term><term>Modèles moléculaires</term><term>RT-PCR</term><term>Variation génétique</term><term>Virus du SRAS</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The rapid transmission and high mortality rate made severe acute respiratory syndrome (SARS) a global threat for which no efficacious therapy is available now. Without sufficient knowledge about the SARS coronavirus (SARS-CoV), it is impossible to define the candidate for the anti-SARS targets. The putative non-structural protein 2 (nsp2) (3CL(pro), following the nomenclature by Gao et al, also known as nsp5 in Snidjer et al) of SARS-CoV plays an important role in viral transcription and replication, and is an attractive target for anti-SARS drug development, so we carried on this study to have an insight into putative polymerase nsp2 of SARS-CoV Guangdong (GD) strain.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15899130</PMID><DateCompleted><Year>2005</Year><Month>06</Month><Day>30</Day></DateCompleted><DateRevised><Year>2008</Year><Month>11</Month><Day>21</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0366-6999</ISSN><JournalIssue CitedMedium="Print"><Volume>118</Volume><Issue>9</Issue><PubDate><Year>2005</Year><Month>May</Month><Day>05</Day></PubDate></JournalIssue><Title>Chinese medical journal</Title><ISOAbbreviation>Chin. Med. J.</ISOAbbreviation></Journal><ArticleTitle>Variation analysis of the severe acute respiratory syndrome coronavirus putative non-structural protein 2 gene and construction of three-dimensional model.</ArticleTitle><Pagination><MedlinePgn>707-13</MedlinePgn></Pagination><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">The rapid transmission and high mortality rate made severe acute respiratory syndrome (SARS) a global threat for which no efficacious therapy is available now. Without sufficient knowledge about the SARS coronavirus (SARS-CoV), it is impossible to define the candidate for the anti-SARS targets. The putative non-structural protein 2 (nsp2) (3CL(pro), following the nomenclature by Gao et al, also known as nsp5 in Snidjer et al) of SARS-CoV plays an important role in viral transcription and replication, and is an attractive target for anti-SARS drug development, so we carried on this study to have an insight into putative polymerase nsp2 of SARS-CoV Guangdong (GD) strain.</AbstractText><AbstractText Label="METHODS" NlmCategory="METHODS">The SARS-CoV strain was isolated from a SARS patient in Guangdong, China, and cultured in Vero E6 cells. The nsp2 gene was amplified by reverse transcription-polymerase chain reaction (RT-PCR) and cloned into eukaryotic expression vector pCI-neo (pCI-neo/nsp2). Then the recombinant eukaryotic expression vector pCI-neo/nsp2 was transfected into COS-7 cells using lipofectin reagent to express the nsp2 protein. The expressive protein of SARS-CoV nsp2 was analyzed by 7% sodium dodecylsulfate polyacrylamide gel electrophoresis (SDS-PAGE). The nucleotide sequence and protein sequence of GD nsp2 were compared with that of other SARS-CoV strains by nucleotide-nucleotide basic local alignment search tool (BLASTN) and protein-protein basic local alignment search tool (BLASTP) to investigate its variance trend during the transmission. The secondary structure of GD strain and that of other strains were predicted by Garnier-Osguthorpe-Robson (GOR) Secondary Structure Prediction. Three-dimensional-PSSM Protein Fold Recognition (Threading) Server was employed to construct the three-dimensional model of the nsp2 protein.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">The putative polymerase nsp2 gene of GD strain was amplified by RT-PCR. The eukaryotic expression vector (pCI-neo/nsp2) was constructed and expressed the protein in COS-7 cells successfully. The result of sequencing and sequence comparison with other SARS-CoV strains showed that nsp2 gene was relatively conservative during the transmission and total five base sites mutated in about 100 strains investigated, three of which in the early and middle phases caused synonymous mutation, and another two base sites variation in the late phase resulted in the amino acid substitutions and secondary structure changes. The three-dimensional structure of the nsp2 protein was successfully constructed.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">The results suggest that polymerase nsp2 is relatively stable during the phase of epidemic. The amino acid and secondary structure change may be important for viral infection. The fact that majority of single nucleotide variations (SNVs) are predicted to cause synonymous, as well as the result of low mutation rate of nsp2 gene in the epidemic variations, indicates that the nsp2 is conservative and could be a target for anti-SARS drugs. The three-dimensional structure result indicates that the nsp2 protein of GD strain is high homologous with 3CL(pro) of SARS-CoV urbani strain, 3CL(pro) of transmissible gastroenteritis virus and 3CL(pro) of human coronavirus 229E strain, which further suggests that nsp2 protein of GD strain possesses the activity of 3CL(pro).</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lu</LastName><ForeName>Jia-hai</ForeName><Initials>JH</Initials><AffiliationInfo><Affiliation>School of Public Health, Sun Yat-sen University, Guangzhou 510080, China. jiahailu@yahoo.com.cn</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Ding-mei</ForeName><Initials>DM</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Guo-ling</ForeName><Initials>GL</Initials></Author><Author ValidYN="Y"><LastName>Guo</LastName><ForeName>Zhong-min</ForeName><Initials>ZM</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Chuan-hai</ForeName><Initials>CH</Initials></Author><Author ValidYN="Y"><LastName>Tan</LastName><ForeName>Bing-yan</ForeName><Initials>BY</Initials></Author><Author ValidYN="Y"><LastName>Ouyang</LastName><ForeName>Li-ping</ForeName><Initials>LP</Initials></Author><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Li</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Yi-min</ForeName><Initials>YM</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Wei-qing</ForeName><Initials>WQ</Initials></Author><Author ValidYN="Y"><LastName>Ling</LastName><ForeName>Wen-hua</ForeName><Initials>WH</Initials></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Xin-bing</ForeName><Initials>XB</Initials></Author><Author ValidYN="Y"><LastName>Zhong</LastName><ForeName>Nan-shan</ForeName><Initials>NS</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>China</Country><MedlineTA>Chin Med J (Engl)</MedlineTA><NlmUniqueID>7513795</NlmUniqueID><ISSNLinking>0366-6999</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D011994">Recombinant Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.4.22.-</RegistryNumber><NameOfSubstance UI="D003546">Cysteine Endopeptidases</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.4.22.-</RegistryNumber><NameOfSubstance UI="C078306">nsP2 proteinase</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000818" MajorTopicYN="N">Animals</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019556" MajorTopicYN="N">COS Cells</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D003546" MajorTopicYN="N">Cysteine Endopeptidases</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="N">biosynthesis</QualifierName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014644" MajorTopicYN="N">Genetic Variation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008958" MajorTopicYN="N">Models, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D011994" MajorTopicYN="N">Recombinant Proteins</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="N">biosynthesis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020133" MajorTopicYN="N">Reverse Transcriptase Polymerase Chain Reaction</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D045473" MajorTopicYN="N">SARS Virus</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D045169" MajorTopicYN="N">Severe Acute Respiratory Syndrome</DescriptorName><QualifierName UI="Q000188" MajorTopicYN="N">drug therapy</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014961" MajorTopicYN="N">X-Ray Diffraction</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2005</Year><Month>5</Month><Day>19</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2005</Year><Month>7</Month><Day>1</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2005</Year><Month>5</Month><Day>19</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">15899130</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
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