Modeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding
Identifieur interne : 002F80 ( Main/Exploration ); précédent : 002F79; suivant : 002F81Modeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding
Auteurs : S. Tenzer [Allemagne] ; B. Peters [Allemagne, États-Unis] ; S. Bulik [Allemagne] ; O. Schoor [Allemagne] ; C. Lemmel [Allemagne] ; M. M. Schatz [Allemagne] ; P.-M. Kloetzel [Allemagne] ; H.-G. Rammensee [Allemagne] ; H. Schild [Allemagne] ; H.-G. Holzhütter [Allemagne]Source :
- Cellular and Molecular Life Sciences CMLS [ 1420-682X ] ; 2005-05-01.
English descriptors
- KwdEn :
Abstract
Abstract.: Epitopes presented by major histocompatibility complex (MHC) class I molecules are selected by a multi-step process. Here we present the first computational prediction of this process based on in vitro experiments characterizing proteasomal cleavage, transport by the transporter associated with antigen processing (TAP) and MHC class I binding. Our novel prediction method for proteasomal cleavages outperforms existing methods when tested on in vitro cleavage data. The analysis of our predictions for a new dataset consisting of 390 endogenously processed MHC class I ligands from cells with known proteasome composition shows that the immunological advantage of switching from constitutive to immunoproteasomes is mainly to suppress the creation of peptides in the cytosol that TAP cannot transport. Furthermore, we show that proteasomes are unlikely to generate MHC class I ligands with a C-terminal lysine residue, suggesting processing of these ligands by a different protease that may be tripeptidyl-peptidase II (TPPII).
Url:
DOI: 10.1007/s00018-005-4528-2
Affiliations:
- Allemagne, États-Unis
- Bade-Wurtemberg, Berlin, Californie, District de Tübingen, Rhénanie-Palatinat
- Berlin, Mayence, Tübingen
Links toward previous steps (curation, corpus...)
- to stream Istex, to step Corpus: 000699
- to stream Istex, to step Curation: 000699
- to stream Istex, to step Checkpoint: 000A93
- to stream Main, to step Merge: 003011
- to stream Main, to step Curation: 002F80
Le document en format XML
<record><TEI wicri:istexFullTextTei="biblStruct"><teiHeader><fileDesc><titleStmt><title xml:lang="en">Modeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding</title><author><name sortKey="Tenzer, S" sort="Tenzer, S" uniqKey="Tenzer S" first="S." last="Tenzer">S. Tenzer</name></author><author><name sortKey="Peters, B" sort="Peters, B" uniqKey="Peters B" first="B." last="Peters">B. Peters</name></author><author><name sortKey="Bulik, S" sort="Bulik, S" uniqKey="Bulik S" first="S." last="Bulik">S. Bulik</name></author><author><name sortKey="Schoor, O" sort="Schoor, O" uniqKey="Schoor O" first="O." last="Schoor">O. Schoor</name></author><author><name sortKey="Lemmel, C" sort="Lemmel, C" uniqKey="Lemmel C" first="C." last="Lemmel">C. Lemmel</name></author><author><name sortKey="Schatz, M M" sort="Schatz, M M" uniqKey="Schatz M" first="M. M." last="Schatz">M. M. Schatz</name></author><author><name sortKey="Kloetzel, P M" sort="Kloetzel, P M" uniqKey="Kloetzel P" first="P.-M." last="Kloetzel">P.-M. Kloetzel</name></author><author><name sortKey="Rammensee, H G" sort="Rammensee, H G" uniqKey="Rammensee H" first="H.-G." last="Rammensee">H.-G. Rammensee</name></author><author><name sortKey="Schild, H" sort="Schild, H" uniqKey="Schild H" first="H." last="Schild">H. Schild</name></author><author><name sortKey="Holzhutter, H G" sort="Holzhutter, H G" uniqKey="Holzhutter H" first="H.-G." last="Holzhütter">H.-G. Holzhütter</name></author></titleStmt><publicationStmt><idno type="wicri:source">ISTEX</idno><idno type="RBID">ISTEX:82E3CDD8D35F3E8FCA00C0ECFC0A3DF05C7C7DDC</idno><date when="2005" year="2005">2005</date><idno type="doi">10.1007/s00018-005-4528-2</idno><idno type="url">https://api.istex.fr/ark:/67375/VQC-G5PDXKZH-X/fulltext.pdf</idno><idno type="wicri:Area/Istex/Corpus">000699</idno><idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Corpus" wicri:corpus="ISTEX">000699</idno><idno type="wicri:Area/Istex/Curation">000699</idno><idno type="wicri:Area/Istex/Checkpoint">000A93</idno><idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Checkpoint">000A93</idno><idno type="wicri:doubleKey">1420-682X:2005:Tenzer S:modeling:the:mhc</idno><idno type="wicri:Area/Main/Merge">003011</idno><idno type="wicri:Area/Main/Curation">002F80</idno><idno type="wicri:Area/Main/Exploration">002F80</idno></publicationStmt><sourceDesc><biblStruct><analytic><title level="a" type="main" xml:lang="en">Modeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding</title><author><name sortKey="Tenzer, S" sort="Tenzer, S" uniqKey="Tenzer S" first="S." last="Tenzer">S. Tenzer</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute of Immunology, Johannes Gutenberg University, Obere Zahlbacherstr. 67, 55131, Mainz</wicri:regionArea><placeName><region type="land" nuts="2">Rhénanie-Palatinat</region><settlement type="city">Mayence</settlement></placeName></affiliation></author><author><name sortKey="Peters, B" sort="Peters, B" uniqKey="Peters B" first="B." last="Peters">B. Peters</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Biochemistry, University Medical School-Charite, Humboldt University, Monbijoustr. 2, 10117, Berlin</wicri:regionArea><placeName><region type="land" nuts="3">Berlin</region><settlement type="city">Berlin</settlement></placeName></affiliation><affiliation wicri:level="2"><country xml:lang="fr">États-Unis</country><wicri:regionArea>La Jolla Institute for Allergy and Immunology, 10355 Science Center Drive, 92121, San Diego, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Bulik, S" sort="Bulik, S" uniqKey="Bulik S" first="S." last="Bulik">S. Bulik</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Biochemistry, University Medical School-Charite, Humboldt University, Monbijoustr. 2, 10117, Berlin</wicri:regionArea><placeName><region type="land" nuts="3">Berlin</region><settlement type="city">Berlin</settlement></placeName></affiliation></author><author><name sortKey="Schoor, O" sort="Schoor, O" uniqKey="Schoor O" first="O." last="Schoor">O. Schoor</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Cell Biology, Department of Immunology, University of Tübingen, Auf der Morgenstelle 15, 72076, Tübingen</wicri:regionArea><placeName><region type="land" nuts="1">Bade-Wurtemberg</region><region type="district" nuts="2">District de Tübingen</region><settlement type="city">Tübingen</settlement></placeName></affiliation></author><author><name sortKey="Lemmel, C" sort="Lemmel, C" uniqKey="Lemmel C" first="C." last="Lemmel">C. Lemmel</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Cell Biology, Department of Immunology, University of Tübingen, Auf der Morgenstelle 15, 72076, Tübingen</wicri:regionArea><placeName><region type="land" nuts="1">Bade-Wurtemberg</region><region type="district" nuts="2">District de Tübingen</region><settlement type="city">Tübingen</settlement></placeName></affiliation></author><author><name sortKey="Schatz, M M" sort="Schatz, M M" uniqKey="Schatz M" first="M. M." last="Schatz">M. M. Schatz</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute of Immunology, Johannes Gutenberg University, Obere Zahlbacherstr. 67, 55131, Mainz</wicri:regionArea><placeName><region type="land" nuts="2">Rhénanie-Palatinat</region><settlement type="city">Mayence</settlement></placeName></affiliation></author><author><name sortKey="Kloetzel, P M" sort="Kloetzel, P M" uniqKey="Kloetzel P" first="P.-M." last="Kloetzel">P.-M. Kloetzel</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Biochemistry, University Medical School-Charite, Humboldt University, Monbijoustr. 2, 10117, Berlin</wicri:regionArea><placeName><region type="land" nuts="3">Berlin</region><settlement type="city">Berlin</settlement></placeName></affiliation></author><author><name sortKey="Rammensee, H G" sort="Rammensee, H G" uniqKey="Rammensee H" first="H.-G." last="Rammensee">H.-G. Rammensee</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Cell Biology, Department of Immunology, University of Tübingen, Auf der Morgenstelle 15, 72076, Tübingen</wicri:regionArea><placeName><region type="land" nuts="1">Bade-Wurtemberg</region><region type="district" nuts="2">District de Tübingen</region><settlement type="city">Tübingen</settlement></placeName></affiliation></author><author><name sortKey="Schild, H" sort="Schild, H" uniqKey="Schild H" first="H." last="Schild">H. Schild</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute of Immunology, Johannes Gutenberg University, Obere Zahlbacherstr. 67, 55131, Mainz</wicri:regionArea><placeName><region type="land" nuts="2">Rhénanie-Palatinat</region><settlement type="city">Mayence</settlement></placeName></affiliation><affiliation wicri:level="1"><country wicri:rule="url">Allemagne</country></affiliation></author><author><name sortKey="Holzhutter, H G" sort="Holzhutter, H G" uniqKey="Holzhutter H" first="H.-G." last="Holzhütter">H.-G. Holzhütter</name><affiliation wicri:level="3"><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute for Biochemistry, University Medical School-Charite, Humboldt University, Monbijoustr. 2, 10117, Berlin</wicri:regionArea><placeName><region type="land" nuts="3">Berlin</region><settlement type="city">Berlin</settlement></placeName></affiliation></author></analytic><monogr></monogr><series><title level="j">Cellular and Molecular Life Sciences CMLS</title><title level="j" type="abbrev">CMLS, Cell. Mol. Life Sci.</title><idno type="ISSN">1420-682X</idno><idno type="eISSN">1420-9071</idno><imprint><publisher>Birkhäuser-Verlag; www.birkhauser.ch</publisher><pubPlace>Basel</pubPlace><date type="published" when="2005-05-01">2005-05-01</date><biblScope unit="volume">62</biblScope><biblScope unit="issue">9</biblScope><biblScope unit="page" from="1025">1025</biblScope><biblScope unit="page" to="1037">1037</biblScope></imprint><idno type="ISSN">1420-682X</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">1420-682X</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>MHC</term><term>Proteasome</term><term>TAP</term><term>antigen processing</term><term>epitope prediction</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract.: Epitopes presented by major histocompatibility complex (MHC) class I molecules are selected by a multi-step process. Here we present the first computational prediction of this process based on in vitro experiments characterizing proteasomal cleavage, transport by the transporter associated with antigen processing (TAP) and MHC class I binding. Our novel prediction method for proteasomal cleavages outperforms existing methods when tested on in vitro cleavage data. The analysis of our predictions for a new dataset consisting of 390 endogenously processed MHC class I ligands from cells with known proteasome composition shows that the immunological advantage of switching from constitutive to immunoproteasomes is mainly to suppress the creation of peptides in the cytosol that TAP cannot transport. Furthermore, we show that proteasomes are unlikely to generate MHC class I ligands with a C-terminal lysine residue, suggesting processing of these ligands by a different protease that may be tripeptidyl-peptidase II (TPPII).</div></front></TEI><affiliations><list><country><li>Allemagne</li><li>États-Unis</li></country><region><li>Bade-Wurtemberg</li><li>Berlin</li><li>Californie</li><li>District de Tübingen</li><li>Rhénanie-Palatinat</li></region><settlement><li>Berlin</li><li>Mayence</li><li>Tübingen</li></settlement></list><tree><country name="Allemagne"><region name="Rhénanie-Palatinat"><name sortKey="Tenzer, S" sort="Tenzer, S" uniqKey="Tenzer S" first="S." last="Tenzer">S. Tenzer</name></region><name sortKey="Bulik, S" sort="Bulik, S" uniqKey="Bulik S" first="S." last="Bulik">S. Bulik</name><name sortKey="Holzhutter, H G" sort="Holzhutter, H G" uniqKey="Holzhutter H" first="H.-G." last="Holzhütter">H.-G. Holzhütter</name><name sortKey="Kloetzel, P M" sort="Kloetzel, P M" uniqKey="Kloetzel P" first="P.-M." last="Kloetzel">P.-M. Kloetzel</name><name sortKey="Lemmel, C" sort="Lemmel, C" uniqKey="Lemmel C" first="C." last="Lemmel">C. Lemmel</name><name sortKey="Peters, B" sort="Peters, B" uniqKey="Peters B" first="B." last="Peters">B. Peters</name><name sortKey="Rammensee, H G" sort="Rammensee, H G" uniqKey="Rammensee H" first="H.-G." last="Rammensee">H.-G. Rammensee</name><name sortKey="Schatz, M M" sort="Schatz, M M" uniqKey="Schatz M" first="M. M." last="Schatz">M. M. Schatz</name><name sortKey="Schild, H" sort="Schild, H" uniqKey="Schild H" first="H." last="Schild">H. Schild</name><name sortKey="Schild, H" sort="Schild, H" uniqKey="Schild H" first="H." last="Schild">H. Schild</name><name sortKey="Schoor, O" sort="Schoor, O" uniqKey="Schoor O" first="O." last="Schoor">O. Schoor</name></country><country name="États-Unis"><region name="Californie"><name sortKey="Peters, B" sort="Peters, B" uniqKey="Peters B" first="B." last="Peters">B. Peters</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002F80 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 002F80 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= MersV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= ISTEX:82E3CDD8D35F3E8FCA00C0ECFC0A3DF05C7C7DDC
|texte= Modeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding
}}
| This area was generated with Dilib version V0.6.33. |  |