Profiling of substrate specificities of 3C-like proteases from group 1, 2a, 2b, and 3 coronaviruses.
Identifieur interne : 001448 ( PubMed/Corpus ); précédent : 001447; suivant : 001449Profiling of substrate specificities of 3C-like proteases from group 1, 2a, 2b, and 3 coronaviruses.
Auteurs : Chi-Pang Chuck ; Hak-Fun Chow ; David Chi-Cheong Wan ; Kam-Bo WongSource :
- PloS one [ 1932-6203 ] ; 2011.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Peptide Hydrolases.
- classification : Coronavirus.
- enzymology : Coronavirus.
- chemical , metabolism : Peptide Hydrolases.
- Cloning, Molecular, Models, Molecular, Molecular Sequence Data, Substrate Specificity.
Abstract
Coronaviruses (CoVs) can be classified into alphacoronavirus (group 1), betacoronavirus (group 2), and gammacoronavirus (group 3) based on diversity of the protein sequences. Their 3C-like protease (3CL(pro)), which catalyzes the proteolytic processing of the polyproteins for viral replication, is a potential target for anti-coronaviral infection.
DOI: 10.1371/journal.pone.0027228
PubMed: 22073294
Links to Exploration step
pubmed:22073294Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Profiling of substrate specificities of 3C-like proteases from group 1, 2a, 2b, and 3 coronaviruses.</title><author><name sortKey="Chuck, Chi Pang" sort="Chuck, Chi Pang" uniqKey="Chuck C" first="Chi-Pang" last="Chuck">Chi-Pang Chuck</name><affiliation><nlm:affiliation>School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.</nlm:affiliation></affiliation></author><author><name sortKey="Chow, Hak Fun" sort="Chow, Hak Fun" uniqKey="Chow H" first="Hak-Fun" last="Chow">Hak-Fun Chow</name></author><author><name sortKey="Wan, David Chi Cheong" sort="Wan, David Chi Cheong" uniqKey="Wan D" first="David Chi-Cheong" last="Wan">David Chi-Cheong Wan</name></author><author><name sortKey="Wong, Kam Bo" sort="Wong, Kam Bo" uniqKey="Wong K" first="Kam-Bo" last="Wong">Kam-Bo Wong</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2011">2011</date><idno type="RBID">pubmed:22073294</idno><idno type="pmid">22073294</idno><idno type="doi">10.1371/journal.pone.0027228</idno><idno type="wicri:Area/PubMed/Corpus">001448</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001448</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Profiling of substrate specificities of 3C-like proteases from group 1, 2a, 2b, and 3 coronaviruses.</title><author><name sortKey="Chuck, Chi Pang" sort="Chuck, Chi Pang" uniqKey="Chuck C" first="Chi-Pang" last="Chuck">Chi-Pang Chuck</name><affiliation><nlm:affiliation>School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.</nlm:affiliation></affiliation></author><author><name sortKey="Chow, Hak Fun" sort="Chow, Hak Fun" uniqKey="Chow H" first="Hak-Fun" last="Chow">Hak-Fun Chow</name></author><author><name sortKey="Wan, David Chi Cheong" sort="Wan, David Chi Cheong" uniqKey="Wan D" first="David Chi-Cheong" last="Wan">David Chi-Cheong Wan</name></author><author><name sortKey="Wong, Kam Bo" sort="Wong, Kam Bo" uniqKey="Wong K" first="Kam-Bo" last="Wong">Kam-Bo Wong</name></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Cloning, Molecular</term><term>Coronavirus (classification)</term><term>Coronavirus (enzymology)</term><term>Models, Molecular</term><term>Molecular Sequence Data</term><term>Peptide Hydrolases (genetics)</term><term>Peptide Hydrolases (metabolism)</term><term>Substrate Specificity</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Peptide Hydrolases</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Peptide Hydrolases</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Cloning, Molecular</term><term>Models, Molecular</term><term>Molecular Sequence Data</term><term>Substrate Specificity</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Coronaviruses (CoVs) can be classified into alphacoronavirus (group 1), betacoronavirus (group 2), and gammacoronavirus (group 3) based on diversity of the protein sequences. Their 3C-like protease (3CL(pro)), which catalyzes the proteolytic processing of the polyproteins for viral replication, is a potential target for anti-coronaviral infection.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">22073294</PMID><DateCompleted><Year>2012</Year><Month>03</Month><Day>26</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>6</Volume><Issue>11</Issue><PubDate><Year>2011</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS ONE</ISOAbbreviation></Journal><ArticleTitle>Profiling of substrate specificities of 3C-like proteases from group 1, 2a, 2b, and 3 coronaviruses.</ArticleTitle><Pagination><MedlinePgn>e27228</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0027228</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Coronaviruses (CoVs) can be classified into alphacoronavirus (group 1), betacoronavirus (group 2), and gammacoronavirus (group 3) based on diversity of the protein sequences. Their 3C-like protease (3CL(pro)), which catalyzes the proteolytic processing of the polyproteins for viral replication, is a potential target for anti-coronaviral infection.</AbstractText><AbstractText Label="METHODOLOGY/PRINCIPAL FINDINGS" NlmCategory="RESULTS">Here, we profiled the substrate specificities of 3CL(pro) from human CoV NL63 (group 1), human CoV OC43 (group 2a), severe acute respiratory syndrome coronavirus (SARS-CoV) (group 2b) and infectious bronchitis virus (IBV) (group 3), by measuring their activity against a substrate library of 19 × 8 of variants with single substitutions at P5 to P3' positions. The results were correlated with structural properties like side chain volume, hydrophobicity, and secondary structure propensities of substituting residues. All 3CL(pro) prefer Gln at P1 position, Leu at P2 position, basic residues at P3 position, small hydrophobic residues at P4 position, and small residues at P1' and P2' positions. Despite 3CL(pro) from different groups of CoVs share many similarities in substrate specificities, differences in substrate specificities were observed at P4 positions, with IBV 3CL(pro) prefers P4-Pro and SARS-CoV 3CL(pro) prefers P4-Val. By combining the most favorable residues at P3 to P5 positions, we identified super-active substrate sequences 'VARLQ↓SGF' that can be cleaved efficiently by all 3CL(pro) with relative activity of 1.7 to 3.2, and 'VPRLQ↓SGF' that can be cleaved specifically by IBV 3CL(pro) with relative activity of 4.3.</AbstractText><AbstractText Label="CONCLUSIONS/SIGNIFICANCE" NlmCategory="CONCLUSIONS">The comprehensive substrate specificities of 3CL(pro) from each of the group 1, 2a, 2b, and 3 CoVs have been profiled in this study, which may provide insights into a rational design of broad-spectrum peptidomimetic inhibitors targeting the proteases.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Chuck</LastName><ForeName>Chi-Pang</ForeName><Initials>CP</Initials><AffiliationInfo><Affiliation>School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chow</LastName><ForeName>Hak-Fun</ForeName><Initials>HF</Initials></Author><Author ValidYN="Y"><LastName>Wan</LastName><ForeName>David Chi-Cheong</ForeName><Initials>DC</Initials></Author><Author ValidYN="Y"><LastName>Wong</LastName><ForeName>Kam-Bo</ForeName><Initials>KB</Initials></Author></AuthorList><Language>eng</Language><DataBankList CompleteYN="Y"><DataBank><DataBankName>GENBANK</DataBankName><AccessionNumberList><AccessionNumber>AAX85666</AccessionNumber><AccessionNumber>AY567487</AccessionNumber><AccessionNumber>M95169</AccessionNumber></AccessionNumberList></DataBank></DataBankList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2011</Year><Month>11</Month><Day>02</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>EC 3.4.-</RegistryNumber><NameOfSubstance UI="D010447">Peptide Hydrolases</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D003001" MajorTopicYN="N">Cloning, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017934" MajorTopicYN="N">Coronavirus</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008958" MajorTopicYN="N">Models, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010447" MajorTopicYN="N">Peptide Hydrolases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D013379" MajorTopicYN="N">Substrate Specificity</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2011</Year><Month>08</Month><Day>10</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2011</Year><Month>10</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2011</Year><Month>11</Month><Day>11</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>11</Month><Day>11</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2012</Year><Month>3</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId 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