New structure model for the packaging signal in the genome of group IIa coronaviruses.
Identifieur interne : 003652 ( Main/Exploration ); précédent : 003651; suivant : 003653New structure model for the packaging signal in the genome of group IIa coronaviruses.
Auteurs : Shih-Cheng Chen [Pays-Bas] ; Erwin Van Den Born ; Sjoerd H E. Van Den Worm ; Cornelis W A. Pleij ; Eric J. Snijder ; René C L. OlsthoornSource :
- Journal of virology [ 0022-538X ] ; 2007.
Descripteurs français
- KwdFr :
- Analyse de séquence d'ADN, Bases de données de protéines, Cadres ouverts de lecture, Conformation d'acide nucléique, Coronavirus (génétique), Données de séquences moléculaires, Génome viral, Spécificité d'espèce, Structure secondaire des protéines, Structure tertiaire des protéines, Séquence nucléotidique, Virus du SRAS (génétique), Virus à ARN (génétique).
- MESH :
- génétique : Coronavirus, Virus du SRAS, Virus à ARN.
- Analyse de séquence d'ADN, Bases de données de protéines, Cadres ouverts de lecture, Conformation d'acide nucléique, Données de séquences moléculaires, Génome viral, Spécificité d'espèce, Structure secondaire des protéines, Structure tertiaire des protéines, Séquence nucléotidique.
English descriptors
- KwdEn :
- MESH :
Abstract
A 190-nucleotide (nt) packaging signal (PS) located in the 3' end of open reading frame 1b in the mouse hepatitis virus, a group IIa coronavirus, was previously postulated to direct genome RNA packaging. Based on phylogenetic data and structure probing, we have identified a 95-nt hairpin within the 190-nt PS domain which is conserved in all group IIa coronaviruses but not in the severe acute respiratory syndrome coronavirus (group IIb), group I coronaviruses, or group III coronaviruses. The hairpin is composed of six copies of a repeating structural subunit that consists of 2-nt bulges and 5-bp stems. We propose that repeating AA bulges are characteristic features of group IIa PSs.
DOI: 10.1128/JVI.02231-06
PubMed: 17428856
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: 001E47
- to stream PubMed, to step Curation: 001E47
- to stream PubMed, to step Checkpoint: 001D54
- to stream Ncbi, to step Merge: 001928
- to stream Ncbi, to step Curation: 001928
- to stream Ncbi, to step Checkpoint: 001928
- to stream Main, to step Merge: 003782
- to stream Main, to step Curation: 003652
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">New structure model for the packaging signal in the genome of group IIa coronaviruses.</title><author><name sortKey="Chen, Shih Cheng" sort="Chen, Shih Cheng" uniqKey="Chen S" first="Shih-Cheng" last="Chen">Shih-Cheng Chen</name><affiliation wicri:level="1"><nlm:affiliation>Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands. olsthoor@chem.leidenuniv.nl.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden</wicri:regionArea><wicri:noRegion>2300 RA Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Van Den Born, Erwin" sort="Van Den Born, Erwin" uniqKey="Van Den Born E" first="Erwin" last="Van Den Born">Erwin Van Den Born</name></author><author><name sortKey="Van Den Worm, Sjoerd H E" sort="Van Den Worm, Sjoerd H E" uniqKey="Van Den Worm S" first="Sjoerd H E" last="Van Den Worm">Sjoerd H E. Van Den Worm</name></author><author><name sortKey="Pleij, Cornelis W A" sort="Pleij, Cornelis W A" uniqKey="Pleij C" first="Cornelis W A" last="Pleij">Cornelis W A. Pleij</name></author><author><name sortKey="Snijder, Eric J" sort="Snijder, Eric J" uniqKey="Snijder E" first="Eric J" last="Snijder">Eric J. Snijder</name></author><author><name sortKey="Olsthoorn, Rene C L" sort="Olsthoorn, Rene C L" uniqKey="Olsthoorn R" first="René C L" last="Olsthoorn">René C L. Olsthoorn</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2007">2007</date><idno type="RBID">pubmed:17428856</idno><idno type="pmid">17428856</idno><idno type="doi">10.1128/JVI.02231-06</idno><idno type="wicri:Area/PubMed/Corpus">001E47</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001E47</idno><idno type="wicri:Area/PubMed/Curation">001E47</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001E47</idno><idno type="wicri:Area/PubMed/Checkpoint">001D54</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001D54</idno><idno type="wicri:Area/Ncbi/Merge">001928</idno><idno type="wicri:Area/Ncbi/Curation">001928</idno><idno type="wicri:Area/Ncbi/Checkpoint">001928</idno><idno type="wicri:doubleKey">0022-538X:2007:Chen S:new:structure:model</idno><idno type="wicri:Area/Main/Merge">003782</idno><idno type="wicri:Area/Main/Curation">003652</idno><idno type="wicri:Area/Main/Exploration">003652</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">New structure model for the packaging signal in the genome of group IIa coronaviruses.</title><author><name sortKey="Chen, Shih Cheng" sort="Chen, Shih Cheng" uniqKey="Chen S" first="Shih-Cheng" last="Chen">Shih-Cheng Chen</name><affiliation wicri:level="1"><nlm:affiliation>Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands. olsthoor@chem.leidenuniv.nl.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden</wicri:regionArea><wicri:noRegion>2300 RA Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Van Den Born, Erwin" sort="Van Den Born, Erwin" uniqKey="Van Den Born E" first="Erwin" last="Van Den Born">Erwin Van Den Born</name></author><author><name sortKey="Van Den Worm, Sjoerd H E" sort="Van Den Worm, Sjoerd H E" uniqKey="Van Den Worm S" first="Sjoerd H E" last="Van Den Worm">Sjoerd H E. Van Den Worm</name></author><author><name sortKey="Pleij, Cornelis W A" sort="Pleij, Cornelis W A" uniqKey="Pleij C" first="Cornelis W A" last="Pleij">Cornelis W A. Pleij</name></author><author><name sortKey="Snijder, Eric J" sort="Snijder, Eric J" uniqKey="Snijder E" first="Eric J" last="Snijder">Eric J. Snijder</name></author><author><name sortKey="Olsthoorn, Rene C L" sort="Olsthoorn, Rene C L" uniqKey="Olsthoorn R" first="René C L" last="Olsthoorn">René C L. Olsthoorn</name></author></analytic><series><title level="j">Journal of virology</title><idno type="ISSN">0022-538X</idno><imprint><date when="2007" type="published">2007</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence</term><term>Coronavirus (genetics)</term><term>Databases, Protein</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Nucleic Acid Conformation</term><term>Open Reading Frames</term><term>Protein Structure, Secondary</term><term>Protein Structure, Tertiary</term><term>RNA Viruses (genetics)</term><term>SARS Virus (genetics)</term><term>Sequence Analysis, DNA</term><term>Species Specificity</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Bases de données de protéines</term><term>Cadres ouverts de lecture</term><term>Conformation d'acide nucléique</term><term>Coronavirus (génétique)</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Spécificité d'espèce</term><term>Structure secondaire des protéines</term><term>Structure tertiaire des protéines</term><term>Séquence nucléotidique</term><term>Virus du SRAS (génétique)</term><term>Virus à ARN (génétique)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Coronavirus</term><term>RNA Viruses</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Coronavirus</term><term>Virus du SRAS</term><term>Virus à ARN</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Databases, Protein</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Nucleic Acid Conformation</term><term>Open Reading Frames</term><term>Protein Structure, Secondary</term><term>Protein Structure, Tertiary</term><term>Sequence Analysis, DNA</term><term>Species Specificity</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Bases de données de protéines</term><term>Cadres ouverts de lecture</term><term>Conformation d'acide nucléique</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Spécificité d'espèce</term><term>Structure secondaire des protéines</term><term>Structure tertiaire des protéines</term><term>Séquence nucléotidique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">A 190-nucleotide (nt) packaging signal (PS) located in the 3' end of open reading frame 1b in the mouse hepatitis virus, a group IIa coronavirus, was previously postulated to direct genome RNA packaging. Based on phylogenetic data and structure probing, we have identified a 95-nt hairpin within the 190-nt PS domain which is conserved in all group IIa coronaviruses but not in the severe acute respiratory syndrome coronavirus (group IIb), group I coronaviruses, or group III coronaviruses. The hairpin is composed of six copies of a repeating structural subunit that consists of 2-nt bulges and 5-bp stems. We propose that repeating AA bulges are characteristic features of group IIa PSs.</div></front></TEI><affiliations><list><country><li>Pays-Bas</li></country></list><tree><noCountry><name sortKey="Olsthoorn, Rene C L" sort="Olsthoorn, Rene C L" uniqKey="Olsthoorn R" first="René C L" last="Olsthoorn">René C L. Olsthoorn</name><name sortKey="Pleij, Cornelis W A" sort="Pleij, Cornelis W A" uniqKey="Pleij C" first="Cornelis W A" last="Pleij">Cornelis W A. Pleij</name><name sortKey="Snijder, Eric J" sort="Snijder, Eric J" uniqKey="Snijder E" first="Eric J" last="Snijder">Eric J. Snijder</name><name sortKey="Van Den Born, Erwin" sort="Van Den Born, Erwin" uniqKey="Van Den Born E" first="Erwin" last="Van Den Born">Erwin Van Den Born</name><name sortKey="Van Den Worm, Sjoerd H E" sort="Van Den Worm, Sjoerd H E" uniqKey="Van Den Worm S" first="Sjoerd H E" last="Van Den Worm">Sjoerd H E. Van Den Worm</name></noCountry><country name="Pays-Bas"><noRegion><name sortKey="Chen, Shih Cheng" sort="Chen, Shih Cheng" uniqKey="Chen S" first="Shih-Cheng" last="Chen">Shih-Cheng Chen</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 003652 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 003652 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= SrasV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:17428856
|texte= New structure model for the packaging signal in the genome of group IIa coronaviruses.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:17428856" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a SrasV1
| This area was generated with Dilib version V0.6.33. |  |