SrasV1, PubMed, Corpus, bibRecord, 000F08

Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.

Identifieur interne : 000F08 ( PubMed/Corpus ); précédent : 000F07; suivant : 000F09

Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.

Auteurs : Hao-Jen Hsu ; Meng-Han Lin ; Christina Schindler ; Wolfgang B. Fischer

Source :

Proteins [ 1097-0134 ] ; 2015.

RBID : pubmed:25394339

English descriptors

KwdEn :
- Hydrophobic and Hydrophilic Interactions, Ion Channel Gating, Ion Channels (chemistry), Molecular Dynamics Simulation, Permeability, Potassium (chemistry), Protein Structure, Secondary, Protein Structure, Tertiary, SARS Virus (chemistry), Sodium (chemistry), Viral Proteins (chemistry).
MESH :
- chemical , chemistry : Ion Channels, Potassium, Sodium, Viral Proteins.
- chemistry : SARS Virus.
- Hydrophobic and Hydrophilic Interactions, Ion Channel Gating, Molecular Dynamics Simulation, Permeability, Protein Structure, Secondary, Protein Structure, Tertiary.

Abstract

ORF 8a is a short 39 amino acid bitopic membrane protein encoded by severe acute respiratory syndrome causing corona virus (SARS-CoV). It has been identified to increase permeability of the lipid membrane for cations. Permeability is suggested to occur due to the assembly of helical bundles. Computational models of a pentameric assembly of 8a peptides are generated using the first 22 amino acids, which include the transmembrane domain. Low energy structures reveal a hydrophilic pore mantled by residues Thr-8, and -18, Ser-11, Cys-13, and Arg-22. Potential of mean force (PMF) profiles for mono (Na(+) , K(+) , Cl(-) ) and divalent (Ca(2+) ) ions along the pore are calculated. The data support experimental findings of a weak cation selectivity of the channel. Calculations on 8a are compared to data derived for a pentameric bundle consisting of the M2 helices of the bacterial pentameric ligand gated ion channel GLIC (3EHZ). PMF curves of both, bundles 8a and M2, show sigmoidal shaped profiles. In comparison to the data for the M2-GLIC model, data of the 8a bundle show lower amplitude of the PMF values between maximum and minimum and less discrimination amongst ions.

DOI: 10.1002/prot.24721
PubMed: 25394339

Links to Exploration step

pubmed:25394339

Le document en format XML

<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.</title>
<author><name sortKey="Hsu, Hao Jen" sort="Hsu, Hao Jen" uniqKey="Hsu H" first="Hao-Jen" last="Hsu">Hao-Jen Hsu</name>
<affiliation><nlm:affiliation>Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei, 112, Taiwan; Biophotonics & Molecular Imaging Research Center (BMIRC), National Yang-Ming University, Taipei, 112, Taiwan.</nlm:affiliation>
</affiliation>
</author>
<author><name sortKey="Lin, Meng Han" sort="Lin, Meng Han" uniqKey="Lin M" first="Meng-Han" last="Lin">Meng-Han Lin</name>
</author>
<author><name sortKey="Schindler, Christina" sort="Schindler, Christina" uniqKey="Schindler C" first="Christina" last="Schindler">Christina Schindler</name>
</author>
<author><name sortKey="Fischer, Wolfgang B" sort="Fischer, Wolfgang B" uniqKey="Fischer W" first="Wolfgang B" last="Fischer">Wolfgang B. Fischer</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PubMed</idno>
<date when="2015">2015</date>
<idno type="RBID">pubmed:25394339</idno>
<idno type="pmid">25394339</idno>
<idno type="doi">10.1002/prot.24721</idno>
<idno type="wicri:Area/PubMed/Corpus">000F08</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000F08</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.</title>
<author><name sortKey="Hsu, Hao Jen" sort="Hsu, Hao Jen" uniqKey="Hsu H" first="Hao-Jen" last="Hsu">Hao-Jen Hsu</name>
<affiliation><nlm:affiliation>Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei, 112, Taiwan; Biophotonics & Molecular Imaging Research Center (BMIRC), National Yang-Ming University, Taipei, 112, Taiwan.</nlm:affiliation>
</affiliation>
</author>
<author><name sortKey="Lin, Meng Han" sort="Lin, Meng Han" uniqKey="Lin M" first="Meng-Han" last="Lin">Meng-Han Lin</name>
</author>
<author><name sortKey="Schindler, Christina" sort="Schindler, Christina" uniqKey="Schindler C" first="Christina" last="Schindler">Christina Schindler</name>
</author>
<author><name sortKey="Fischer, Wolfgang B" sort="Fischer, Wolfgang B" uniqKey="Fischer W" first="Wolfgang B" last="Fischer">Wolfgang B. Fischer</name>
</author>
</analytic>
<series><title level="j">Proteins</title>
<idno type="eISSN">1097-0134</idno>
<imprint><date when="2015" type="published">2015</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Hydrophobic and Hydrophilic Interactions</term>
<term>Ion Channel Gating</term>
<term>Ion Channels (chemistry)</term>
<term>Molecular Dynamics Simulation</term>
<term>Permeability</term>
<term>Potassium (chemistry)</term>
<term>Protein Structure, Secondary</term>
<term>Protein Structure, Tertiary</term>
<term>SARS Virus (chemistry)</term>
<term>Sodium (chemistry)</term>
<term>Viral Proteins (chemistry)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Ion Channels</term>
<term>Potassium</term>
<term>Sodium</term>
<term>Viral Proteins</term>
</keywords>
<keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>SARS Virus</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Hydrophobic and Hydrophilic Interactions</term>
<term>Ion Channel Gating</term>
<term>Molecular Dynamics Simulation</term>
<term>Permeability</term>
<term>Protein Structure, Secondary</term>
<term>Protein Structure, Tertiary</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">ORF 8a is a short 39 amino acid bitopic membrane protein encoded by severe acute respiratory syndrome causing corona virus (SARS-CoV). It has been identified to increase permeability of the lipid membrane for cations. Permeability is suggested to occur due to the assembly of helical bundles. Computational models of a pentameric assembly of 8a peptides are generated using the first 22 amino acids, which include the transmembrane domain. Low energy structures reveal a hydrophilic pore mantled by residues Thr-8, and -18, Ser-11, Cys-13, and Arg-22. Potential of mean force (PMF) profiles for mono (Na(+) , K(+) , Cl(-) ) and divalent (Ca(2+) ) ions along the pore are calculated. The data support experimental findings of a weak cation selectivity of the channel. Calculations on 8a are compared to data derived for a pentameric bundle consisting of the M2 helices of the bacterial pentameric ligand gated ion channel GLIC (3EHZ). PMF curves of both, bundles 8a and M2, show sigmoidal shaped profiles. In comparison to the data for the M2-GLIC model, data of the 8a bundle show lower amplitude of the PMF values between maximum and minimum and less discrimination amongst ions.</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25394339</PMID>
<DateCompleted><Year>2015</Year>
<Month>09</Month>
<Day>30</Day>
</DateCompleted>
<DateRevised><Year>2015</Year>
<Month>01</Month>
<Day>19</Day>
</DateRevised>
<Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1097-0134</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>83</Volume>
<Issue>2</Issue>
<PubDate><Year>2015</Year>
<Month>Feb</Month>
</PubDate>
</JournalIssue>
<Title>Proteins</Title>
<ISOAbbreviation>Proteins</ISOAbbreviation>
</Journal>
<ArticleTitle>Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.</ArticleTitle>
<Pagination><MedlinePgn>300-8</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1002/prot.24721</ELocationID>
<Abstract><AbstractText>ORF 8a is a short 39 amino acid bitopic membrane protein encoded by severe acute respiratory syndrome causing corona virus (SARS-CoV). It has been identified to increase permeability of the lipid membrane for cations. Permeability is suggested to occur due to the assembly of helical bundles. Computational models of a pentameric assembly of 8a peptides are generated using the first 22 amino acids, which include the transmembrane domain. Low energy structures reveal a hydrophilic pore mantled by residues Thr-8, and -18, Ser-11, Cys-13, and Arg-22. Potential of mean force (PMF) profiles for mono (Na(+) , K(+) , Cl(-) ) and divalent (Ca(2+) ) ions along the pore are calculated. The data support experimental findings of a weak cation selectivity of the channel. Calculations on 8a are compared to data derived for a pentameric bundle consisting of the M2 helices of the bacterial pentameric ligand gated ion channel GLIC (3EHZ). PMF curves of both, bundles 8a and M2, show sigmoidal shaped profiles. In comparison to the data for the M2-GLIC model, data of the 8a bundle show lower amplitude of the PMF values between maximum and minimum and less discrimination amongst ions.</AbstractText>
<CopyrightInformation>© 2014 Wiley Periodicals, Inc.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hsu</LastName>
<ForeName>Hao-Jen</ForeName>
<Initials>HJ</Initials>
<AffiliationInfo><Affiliation>Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei, 112, Taiwan; Biophotonics & Molecular Imaging Research Center (BMIRC), National Yang-Ming University, Taipei, 112, Taiwan.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Lin</LastName>
<ForeName>Meng-Han</ForeName>
<Initials>MH</Initials>
</Author>
<Author ValidYN="Y"><LastName>Schindler</LastName>
<ForeName>Christina</ForeName>
<Initials>C</Initials>
</Author>
<Author ValidYN="Y"><LastName>Fischer</LastName>
<ForeName>Wolfgang B</ForeName>
<Initials>WB</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>
<ArticleDate DateType="Electronic"><Year>2014</Year>
<Month>12</Month>
<Day>19</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>United States</Country>
<MedlineTA>Proteins</MedlineTA>
<NlmUniqueID>8700181</NlmUniqueID>
<ISSNLinking>0887-3585</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D007473">Ion Channels</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D014764">Viral Proteins</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>9NEZ333N27</RegistryNumber>
<NameOfSubstance UI="D012964">Sodium</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>RWP5GA015D</RegistryNumber>
<NameOfSubstance UI="D011188">Potassium</NameOfSubstance>
</Chemical>
</ChemicalList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D057927" MajorTopicYN="N">Hydrophobic and Hydrophilic Interactions</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015640" MajorTopicYN="N">Ion Channel Gating</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D007473" MajorTopicYN="N">Ion Channels</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D056004" MajorTopicYN="N">Molecular Dynamics Simulation</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010539" MajorTopicYN="N">Permeability</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D011188" MajorTopicYN="N">Potassium</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017433" MajorTopicYN="N">Protein Structure, Secondary</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017434" MajorTopicYN="N">Protein Structure, Tertiary</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D045473" MajorTopicYN="N">SARS Virus</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012964" MajorTopicYN="N">Sodium</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014764" MajorTopicYN="N">Viral Proteins</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName>
</MeshHeading>
</MeshHeadingList>
<KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">ORF 8a</Keyword>
<Keyword MajorTopicYN="N">SARS-CoV</Keyword>
<Keyword MajorTopicYN="N">ion selectivity</Keyword>
<Keyword MajorTopicYN="N">membrane protein</Keyword>
<Keyword MajorTopicYN="N">molecular dynamics simulations</Keyword>
<Keyword MajorTopicYN="N">protein assembly</Keyword>
<Keyword MajorTopicYN="N">viral ion channel</Keyword>
</KeywordList>
</MedlineCitation>
<PubmedData><History><PubMedPubDate PubStatus="received"><Year>2014</Year>
<Month>02</Month>
<Day>01</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="revised"><Year>2014</Year>
<Month>10</Month>
<Day>30</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="accepted"><Year>2014</Year>
<Month>10</Month>
<Day>30</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="entrez"><Year>2014</Year>
<Month>11</Month>
<Day>14</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="pubmed"><Year>2014</Year>
<Month>11</Month>
<Day>14</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="medline"><Year>2015</Year>
<Month>10</Month>
<Day>1</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
</History>
<PublicationStatus>ppublish</PublicationStatus>
<ArticleIdList><ArticleId IdType="pubmed">25394339</ArticleId>
<ArticleId IdType="doi">10.1002/prot.24721</ArticleId>
</ArticleIdList>
</PubmedData>
</pubmed>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/PubMed/Corpus

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000F08 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd -nk 000F08 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Sante
   |area=    SrasV1
   |flux=    PubMed
   |étape=   Corpus
   |type=    RBID
   |clé=     pubmed:25394339
   |texte=   Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/RBID.i   -Sk "pubmed:25394339" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd   \
       | NlmPubMed2Wicri -a SrasV1

This area was generated with Dilib version V0.6.33.
Data generation: Tue Apr 28 14:49:16 2020. Site generation: Sat Mar 27 22:06:49 2021

	Serveur d'exploration SRAS
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration SRAS

Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.

Structure based computational assessment of channel properties of assembled ORF-8a from SARS-CoV.

Source :

English descriptors

Abstract

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki