Structural basis for catalysis and ubiquitin recognition by the severe acute respiratory syndrome coronavirus papain-like protease.
Identifieur interne : 001567 ( Main/Curation ); précédent : 001566; suivant : 001568Structural basis for catalysis and ubiquitin recognition by the severe acute respiratory syndrome coronavirus papain-like protease.
Auteurs : Chi-Yuan Chou [Taïwan] ; Hsing-Yi Lai [Taïwan] ; Hung-Yi Chen [Taïwan] ; Shu-Chun Cheng [Taïwan] ; Kai-Wen Cheng [Taïwan] ; Ya-Wen Chou [Taïwan]Source :
- Acta crystallographica. Section D, Biological crystallography [ 1399-0047 ] ; 2014.
Descripteurs français
- KwdFr :
- Alignement de séquences, Biocatalyse, Cinétique, Cristallographie aux rayons X, Données de séquences moléculaires, Escherichia coli (génétique), Escherichia coli (métabolisme), Interactions hydrophobes et hydrophiles, Modèles moléculaires, Mutation, Papaïne (), Papaïne (génétique), Papaïne (métabolisme), Protéines virales (), Protéines virales (génétique), Protéines virales (métabolisme), Protéolyse, Similitude de séquences d'acides aminés, Sites de fixation, Spécificité du substrat, Structure secondaire des protéines, Structure tertiaire des protéines, Séquence d'acides aminés, Taurine (), Taurine (analogues et dérivés), Taurine (métabolisme), Ubiquitine (), Ubiquitine (génétique), Ubiquitine (métabolisme), Virus du SRAS (), Virus du SRAS (enzymologie).
- MESH :
- analogues et dérivés : Taurine.
- enzymologie : Virus du SRAS.
- génétique : Escherichia coli, Papaïne, Protéines virales, Ubiquitine.
- métabolisme : Escherichia coli, Papaïne, Protéines virales, Taurine, Ubiquitine.
- Alignement de séquences, Biocatalyse, Cinétique, Cristallographie aux rayons X, Données de séquences moléculaires, Interactions hydrophobes et hydrophiles, Modèles moléculaires, Mutation, Papaïne, Protéines virales, Protéolyse, Similitude de séquences d'acides aminés, Sites de fixation, Spécificité du substrat, Structure secondaire des protéines, Structure tertiaire des protéines, Séquence d'acides aminés, Taurine, Ubiquitine, Virus du SRAS.
English descriptors
- KwdEn :
- Amino Acid Sequence, Binding Sites, Biocatalysis, Crystallography, X-Ray, Escherichia coli (genetics), Escherichia coli (metabolism), Hydrophobic and Hydrophilic Interactions, Kinetics, Models, Molecular, Molecular Sequence Data, Mutation, Papain (chemistry), Papain (genetics), Papain (metabolism), Protein Structure, Secondary, Protein Structure, Tertiary, Proteolysis, SARS Virus (chemistry), SARS Virus (enzymology), Sequence Alignment, Sequence Homology, Amino Acid, Substrate Specificity, Taurine (analogs & derivatives), Taurine (chemistry), Taurine (metabolism), Ubiquitin (chemistry), Ubiquitin (genetics), Ubiquitin (metabolism), Viral Proteins (chemistry), Viral Proteins (genetics), Viral Proteins (metabolism).
- MESH :
- chemical , analogs & derivatives : Taurine.
- chemical , chemistry : Papain, Taurine, Ubiquitin, Viral Proteins.
- chemistry : SARS Virus.
- enzymology : SARS Virus.
- genetics : Escherichia coli, Papain, Ubiquitin, Viral Proteins.
- metabolism : Escherichia coli, Papain, Taurine, Ubiquitin, Viral Proteins.
- Amino Acid Sequence, Binding Sites, Biocatalysis, Crystallography, X-Ray, Hydrophobic and Hydrophilic Interactions, Kinetics, Models, Molecular, Molecular Sequence Data, Mutation, Protein Structure, Secondary, Protein Structure, Tertiary, Proteolysis, Sequence Alignment, Sequence Homology, Amino Acid, Substrate Specificity.
Abstract
Papain-like protease (PLpro) is one of two cysteine proteases involved in the proteolytic processing of the polyproteins of Severe acute respiratory syndrome coronavirus (SARS-CoV). PLpro also shows significant in vitro deubiquitinating and de-ISGylating activities, although the detailed mechanism is still unclear. Here, the crystal structure of SARS-CoV PLpro C112S mutant in complex with ubiquitin (Ub) is reported at 1.4 Å resolution. The Ub core makes mostly hydrophilic interactions with PLpro, while the Leu-Arg-Gly-Gly C-terminus of Ub is located in the catalytic cleft of PLpro, mimicking the P4-P1 residues and providing the first atomic insights into its catalysis. One of the O atoms of the C-terminal Gly residue of Ub is located in the oxyanion hole consisting of the main-chain amides of residues 112 and 113. Mutations of residues in the PLpro-Ub interface lead to reduced catalytic activity, confirming their importance for Ub binding and/or catalysis. The structure also revealed an N-cyclohexyl-2-aminethanesulfonic acid molecule near the catalytic triad, and kinetic studies suggest that this binding site is also used by other PLpro inhibitors. Overall, the structure provides a foundation for understanding the molecular basis of coronaviral PLpro catalysis.
DOI: 10.1107/S1399004713031040
PubMed: 24531491
Links toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: Pour aller vers cette notice dans l'étape Curation :001045
- to stream PubMed, to step Curation: Pour aller vers cette notice dans l'étape Curation :001045
- to stream PubMed, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000F24
- to stream Ncbi, to step Merge: Pour aller vers cette notice dans l'étape Curation :002833
- to stream Ncbi, to step Curation: Pour aller vers cette notice dans l'étape Curation :002833
- to stream Ncbi, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :002833
- to stream Main, to step Merge: Pour aller vers cette notice dans l'étape Curation :001569
Links to Exploration step
pubmed:24531491Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Structural basis for catalysis and ubiquitin recognition by the severe acute respiratory syndrome coronavirus papain-like protease.</title><author><name sortKey="Chou, Chi Yuan" sort="Chou, Chi Yuan" uniqKey="Chou C" first="Chi-Yuan" last="Chou">Chi-Yuan Chou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Lai, Hsing Yi" sort="Lai, Hsing Yi" uniqKey="Lai H" first="Hsing-Yi" last="Lai">Hsing-Yi Lai</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Hung Yi" sort="Chen, Hung Yi" uniqKey="Chen H" first="Hung-Yi" last="Chen">Hung-Yi Chen</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Cheng, Shu Chun" sort="Cheng, Shu Chun" uniqKey="Cheng S" first="Shu-Chun" last="Cheng">Shu-Chun Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Cheng, Kai Wen" sort="Cheng, Kai Wen" uniqKey="Cheng K" first="Kai-Wen" last="Cheng">Kai-Wen Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Chou, Ya Wen" sort="Chou, Ya Wen" uniqKey="Chou Y" first="Ya-Wen" last="Chou">Ya-Wen Chou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2014">2014</date><idno type="RBID">pubmed:24531491</idno><idno type="pmid">24531491</idno><idno type="doi">10.1107/S1399004713031040</idno><idno type="wicri:Area/PubMed/Corpus">001045</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001045</idno><idno type="wicri:Area/PubMed/Curation">001045</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001045</idno><idno type="wicri:Area/PubMed/Checkpoint">000F24</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000F24</idno><idno type="wicri:Area/Ncbi/Merge">002833</idno><idno type="wicri:Area/Ncbi/Curation">002833</idno><idno type="wicri:Area/Ncbi/Checkpoint">002833</idno><idno type="wicri:Area/Main/Merge">001569</idno><idno type="wicri:Area/Main/Curation">001567</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Structural basis for catalysis and ubiquitin recognition by the severe acute respiratory syndrome coronavirus papain-like protease.</title><author><name sortKey="Chou, Chi Yuan" sort="Chou, Chi Yuan" uniqKey="Chou C" first="Chi-Yuan" last="Chou">Chi-Yuan Chou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Lai, Hsing Yi" sort="Lai, Hsing Yi" uniqKey="Lai H" first="Hsing-Yi" last="Lai">Hsing-Yi Lai</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Hung Yi" sort="Chen, Hung Yi" uniqKey="Chen H" first="Hung-Yi" last="Chen">Hung-Yi Chen</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Cheng, Shu Chun" sort="Cheng, Shu Chun" uniqKey="Cheng S" first="Shu-Chun" last="Cheng">Shu-Chun Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Cheng, Kai Wen" sort="Cheng, Kai Wen" uniqKey="Cheng K" first="Kai-Wen" last="Cheng">Kai-Wen Cheng</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author><author><name sortKey="Chou, Ya Wen" sort="Chou, Ya Wen" uniqKey="Chou Y" first="Ya-Wen" last="Chou">Ya-Wen Chou</name><affiliation wicri:level="1"><nlm:affiliation>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112, Taiwan.</nlm:affiliation><country xml:lang="fr">Taïwan</country><wicri:regionArea>Department of Life Sciences and Institute of Genome Sciences, National Yang-Ming University, Tapei 112</wicri:regionArea><wicri:noRegion>Tapei 112</wicri:noRegion></affiliation></author></analytic><series><title level="j">Acta crystallographica. Section D, Biological crystallography</title><idno type="eISSN">1399-0047</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Sequence</term><term>Binding Sites</term><term>Biocatalysis</term><term>Crystallography, X-Ray</term><term>Escherichia coli (genetics)</term><term>Escherichia coli (metabolism)</term><term>Hydrophobic and Hydrophilic Interactions</term><term>Kinetics</term><term>Models, Molecular</term><term>Molecular Sequence Data</term><term>Mutation</term><term>Papain (chemistry)</term><term>Papain (genetics)</term><term>Papain (metabolism)</term><term>Protein Structure, Secondary</term><term>Protein Structure, Tertiary</term><term>Proteolysis</term><term>SARS Virus (chemistry)</term><term>SARS Virus (enzymology)</term><term>Sequence Alignment</term><term>Sequence Homology, Amino Acid</term><term>Substrate Specificity</term><term>Taurine (analogs & derivatives)</term><term>Taurine (chemistry)</term><term>Taurine (metabolism)</term><term>Ubiquitin (chemistry)</term><term>Ubiquitin (genetics)</term><term>Ubiquitin (metabolism)</term><term>Viral Proteins (chemistry)</term><term>Viral Proteins (genetics)</term><term>Viral Proteins (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences</term><term>Biocatalyse</term><term>Cinétique</term><term>Cristallographie aux rayons X</term><term>Données de séquences moléculaires</term><term>Escherichia coli (génétique)</term><term>Escherichia coli (métabolisme)</term><term>Interactions hydrophobes et hydrophiles</term><term>Modèles moléculaires</term><term>Mutation</term><term>Papaïne ()</term><term>Papaïne (génétique)</term><term>Papaïne (métabolisme)</term><term>Protéines virales ()</term><term>Protéines virales (génétique)</term><term>Protéines virales (métabolisme)</term><term>Protéolyse</term><term>Similitude de séquences d'acides aminés</term><term>Sites de fixation</term><term>Spécificité du substrat</term><term>Structure secondaire des protéines</term><term>Structure tertiaire des protéines</term><term>Séquence d'acides aminés</term><term>Taurine ()</term><term>Taurine (analogues et dérivés)</term><term>Taurine (métabolisme)</term><term>Ubiquitine ()</term><term>Ubiquitine (génétique)</term><term>Ubiquitine (métabolisme)</term><term>Virus du SRAS ()</term><term>Virus du SRAS (enzymologie)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analogs & derivatives" xml:lang="en"><term>Taurine</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Papain</term><term>Taurine</term><term>Ubiquitin</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" qualifier="analogues et dérivés" xml:lang="fr"><term>Taurine</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="enzymologie" xml:lang="fr"><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Escherichia coli</term><term>Papain</term><term>Ubiquitin</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Escherichia coli</term><term>Papaïne</term><term>Protéines virales</term><term>Ubiquitine</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Escherichia coli</term><term>Papain</term><term>Taurine</term><term>Ubiquitin</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Escherichia coli</term><term>Papaïne</term><term>Protéines virales</term><term>Taurine</term><term>Ubiquitine</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Binding Sites</term><term>Biocatalysis</term><term>Crystallography, X-Ray</term><term>Hydrophobic and Hydrophilic Interactions</term><term>Kinetics</term><term>Models, Molecular</term><term>Molecular Sequence Data</term><term>Mutation</term><term>Protein Structure, Secondary</term><term>Protein Structure, Tertiary</term><term>Proteolysis</term><term>Sequence Alignment</term><term>Sequence Homology, Amino Acid</term><term>Substrate Specificity</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Biocatalyse</term><term>Cinétique</term><term>Cristallographie aux rayons X</term><term>Données de séquences moléculaires</term><term>Interactions hydrophobes et hydrophiles</term><term>Modèles moléculaires</term><term>Mutation</term><term>Papaïne</term><term>Protéines virales</term><term>Protéolyse</term><term>Similitude de séquences d'acides aminés</term><term>Sites de fixation</term><term>Spécificité du substrat</term><term>Structure secondaire des protéines</term><term>Structure tertiaire des protéines</term><term>Séquence d'acides aminés</term><term>Taurine</term><term>Ubiquitine</term><term>Virus du SRAS</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Papain-like protease (PLpro) is one of two cysteine proteases involved in the proteolytic processing of the polyproteins of Severe acute respiratory syndrome coronavirus (SARS-CoV). PLpro also shows significant in vitro deubiquitinating and de-ISGylating activities, although the detailed mechanism is still unclear. Here, the crystal structure of SARS-CoV PLpro C112S mutant in complex with ubiquitin (Ub) is reported at 1.4 Å resolution. The Ub core makes mostly hydrophilic interactions with PLpro, while the Leu-Arg-Gly-Gly C-terminus of Ub is located in the catalytic cleft of PLpro, mimicking the P4-P1 residues and providing the first atomic insights into its catalysis. One of the O atoms of the C-terminal Gly residue of Ub is located in the oxyanion hole consisting of the main-chain amides of residues 112 and 113. Mutations of residues in the PLpro-Ub interface lead to reduced catalytic activity, confirming their importance for Ub binding and/or catalysis. The structure also revealed an N-cyclohexyl-2-aminethanesulfonic acid molecule near the catalytic triad, and kinetic studies suggest that this binding site is also used by other PLpro inhibitors. Overall, the structure provides a foundation for understanding the molecular basis of coronaviral PLpro catalysis.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/Main/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001567 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Curation/biblio.hfd -nk 001567 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= SrasV1
|flux= Main
|étape= Curation
|type= RBID
|clé= pubmed:24531491
|texte= Structural basis for catalysis and ubiquitin recognition by the severe acute respiratory syndrome coronavirus papain-like protease.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Curation/RBID.i -Sk "pubmed:24531491" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Curation/biblio.hfd \
| NlmPubMed2Wicri -a SrasV1
| This area was generated with Dilib version V0.6.33. |  |