Serveur d'exploration sur les chloroplastes dans l'oxydoréduction chez les plantes

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Arabidopsis and Chlamydomonas phosphoribulokinase crystal structures complete the redox structural proteome of the Calvin-Benson cycle.

Identifieur interne : 000207 ( Main/Exploration ); précédent : 000206; suivant : 000208

Arabidopsis and Chlamydomonas phosphoribulokinase crystal structures complete the redox structural proteome of the Calvin-Benson cycle.

Auteurs : Libero Gurrieri [Italie] ; Alessandra Del Giudice [Italie] ; Nicola Demitri [Italie] ; Giuseppe Falini [Italie] ; Nicolae Viorel Pavel [Italie] ; Mirko Zaffagnini [Italie] ; Maurizio Polentarutti [Italie] ; Pierre Crozet [France] ; Christophe H. Marchand [France] ; Julien Henri [France] ; Paolo Trost [Italie] ; Stéphane D. Lemaire [France] ; Francesca Sparla [Italie] ; Simona Fermani [Italie]

Source :

RBID : pubmed:30923119

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English descriptors

Abstract

In land plants and algae, the Calvin-Benson (CB) cycle takes place in the chloroplast, a specialized organelle in which photosynthesis occurs. Thioredoxins (TRXs) are small ubiquitous proteins, known to harmonize the two stages of photosynthesis through a thiol-based mechanism. Among the 11 enzymes of the CB cycle, the TRX target phosphoribulokinase (PRK) has yet to be characterized at the atomic scale. To accomplish this goal, we determined the crystal structures of PRK from two model species: the green alga Chlamydomonas reinhardtii (CrPRK) and the land plant Arabidopsis thaliana (AtPRK). PRK is an elongated homodimer characterized by a large central β-sheet of 18 strands, extending between two catalytic sites positioned at its edges. The electrostatic surface potential of the catalytic cavity has both a positive region suitable for binding the phosphate groups of substrates and an exposed negative region to attract positively charged TRX-f. In the catalytic cavity, the regulatory cysteines are 13 Å apart and connected by a flexible region exclusive to photosynthetic eukaryotes-the clamp loop-which is believed to be essential for oxidation-induced structural rearrangements. Structural comparisons with prokaryotic and evolutionarily older PRKs revealed that both AtPRK and CrPRK have a strongly reduced dimer interface and an increased number of random-coiled regions, suggesting that a general loss in structural rigidity correlates with gains in TRX sensitivity during the molecular evolution of PRKs in eukaryotes.

DOI: 10.1073/pnas.1820639116
PubMed: 30923119
PubMed Central: PMC6475412


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<keywords scheme="MESH" xml:lang="en">
<term>Crystallography</term>
<term>Models, Molecular</term>
<term>Oxidation-Reduction</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr">
<term>Cristallographie</term>
<term>Modèles moléculaires</term>
<term>Oxydoréduction</term>
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<front>
<div type="abstract" xml:lang="en">In land plants and algae, the Calvin-Benson (CB) cycle takes place in the chloroplast, a specialized organelle in which photosynthesis occurs. Thioredoxins (TRXs) are small ubiquitous proteins, known to harmonize the two stages of photosynthesis through a thiol-based mechanism. Among the 11 enzymes of the CB cycle, the TRX target phosphoribulokinase (PRK) has yet to be characterized at the atomic scale. To accomplish this goal, we determined the crystal structures of PRK from two model species: the green alga
<i>Chlamydomonas reinhardtii</i>
(
<i>Cr</i>
PRK) and the land plant
<i>Arabidopsis thaliana</i>
(
<i>At</i>
PRK). PRK is an elongated homodimer characterized by a large central β-sheet of 18 strands, extending between two catalytic sites positioned at its edges. The electrostatic surface potential of the catalytic cavity has both a positive region suitable for binding the phosphate groups of substrates and an exposed negative region to attract positively charged TRX-f. In the catalytic cavity, the regulatory cysteines are 13 Å apart and connected by a flexible region exclusive to photosynthetic eukaryotes-the clamp loop-which is believed to be essential for oxidation-induced structural rearrangements. Structural comparisons with prokaryotic and evolutionarily older PRKs revealed that both
<i>At</i>
PRK and
<i>Cr</i>
PRK have a strongly reduced dimer interface and an increased number of random-coiled regions, suggesting that a general loss in structural rigidity correlates with gains in TRX sensitivity during the molecular evolution of PRKs in eukaryotes.</div>
</front>
</TEI>
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<DateCompleted>
<Year>2020</Year>
<Month>03</Month>
<Day>23</Day>
</DateCompleted>
<DateRevised>
<Year>2020</Year>
<Month>03</Month>
<Day>23</Day>
</DateRevised>
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<Journal>
<ISSN IssnType="Electronic">1091-6490</ISSN>
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<Volume>116</Volume>
<Issue>16</Issue>
<PubDate>
<Year>2019</Year>
<Month>04</Month>
<Day>16</Day>
</PubDate>
</JournalIssue>
<Title>Proceedings of the National Academy of Sciences of the United States of America</Title>
<ISOAbbreviation>Proc Natl Acad Sci U S A</ISOAbbreviation>
</Journal>
<ArticleTitle>
<i>Arabidopsis</i>
and
<i>Chlamydomonas</i>
phosphoribulokinase crystal structures complete the redox structural proteome of the Calvin-Benson cycle.</ArticleTitle>
<Pagination>
<MedlinePgn>8048-8053</MedlinePgn>
</Pagination>
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<Abstract>
<AbstractText>In land plants and algae, the Calvin-Benson (CB) cycle takes place in the chloroplast, a specialized organelle in which photosynthesis occurs. Thioredoxins (TRXs) are small ubiquitous proteins, known to harmonize the two stages of photosynthesis through a thiol-based mechanism. Among the 11 enzymes of the CB cycle, the TRX target phosphoribulokinase (PRK) has yet to be characterized at the atomic scale. To accomplish this goal, we determined the crystal structures of PRK from two model species: the green alga
<i>Chlamydomonas reinhardtii</i>
(
<i>Cr</i>
PRK) and the land plant
<i>Arabidopsis thaliana</i>
(
<i>At</i>
PRK). PRK is an elongated homodimer characterized by a large central β-sheet of 18 strands, extending between two catalytic sites positioned at its edges. The electrostatic surface potential of the catalytic cavity has both a positive region suitable for binding the phosphate groups of substrates and an exposed negative region to attract positively charged TRX-f. In the catalytic cavity, the regulatory cysteines are 13 Å apart and connected by a flexible region exclusive to photosynthetic eukaryotes-the clamp loop-which is believed to be essential for oxidation-induced structural rearrangements. Structural comparisons with prokaryotic and evolutionarily older PRKs revealed that both
<i>At</i>
PRK and
<i>Cr</i>
PRK have a strongly reduced dimer interface and an increased number of random-coiled regions, suggesting that a general loss in structural rigidity correlates with gains in TRX sensitivity during the molecular evolution of PRKs in eukaryotes.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y">
<Author ValidYN="Y">
<LastName>Gurrieri</LastName>
<ForeName>Libero</ForeName>
<Initials>L</Initials>
<AffiliationInfo>
<Affiliation>Department of Pharmacy and Biotechnology-FaBiT, University of Bologna, 40126 Bologna, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Del Giudice</LastName>
<ForeName>Alessandra</ForeName>
<Initials>A</Initials>
<AffiliationInfo>
<Affiliation>Department of Chemistry, University of Rome Sapienza, 00185 Rome, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Demitri</LastName>
<ForeName>Nicola</ForeName>
<Initials>N</Initials>
<AffiliationInfo>
<Affiliation>Elettra-Sincrotrone Trieste, 34149 Basovizza, Trieste, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Falini</LastName>
<ForeName>Giuseppe</ForeName>
<Initials>G</Initials>
<AffiliationInfo>
<Affiliation>Department of Chemistry G. Ciamician, University of Bologna, 40126 Bologna, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Pavel</LastName>
<ForeName>Nicolae Viorel</ForeName>
<Initials>NV</Initials>
<AffiliationInfo>
<Affiliation>Department of Chemistry, University of Rome Sapienza, 00185 Rome, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Zaffagnini</LastName>
<ForeName>Mirko</ForeName>
<Initials>M</Initials>
<AffiliationInfo>
<Affiliation>Department of Pharmacy and Biotechnology-FaBiT, University of Bologna, 40126 Bologna, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Polentarutti</LastName>
<ForeName>Maurizio</ForeName>
<Initials>M</Initials>
<AffiliationInfo>
<Affiliation>Elettra-Sincrotrone Trieste, 34149 Basovizza, Trieste, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Crozet</LastName>
<ForeName>Pierre</ForeName>
<Initials>P</Initials>
<AffiliationInfo>
<Affiliation>Institut de Biologie Physico-Chimique, UMR8226, CNRS, Sorbonne Université, 75005 Paris, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Marchand</LastName>
<ForeName>Christophe H</ForeName>
<Initials>CH</Initials>
<Identifier Source="ORCID">0000-0002-0729-3841</Identifier>
<AffiliationInfo>
<Affiliation>Institut de Biologie Physico-Chimique, UMR8226, CNRS, Sorbonne Université, 75005 Paris, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Henri</LastName>
<ForeName>Julien</ForeName>
<Initials>J</Initials>
<AffiliationInfo>
<Affiliation>Institut de Biologie Physico-Chimique, UMR8226, CNRS, Sorbonne Université, 75005 Paris, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Trost</LastName>
<ForeName>Paolo</ForeName>
<Initials>P</Initials>
<Identifier Source="ORCID">0000-0002-6347-8701</Identifier>
<AffiliationInfo>
<Affiliation>Department of Pharmacy and Biotechnology-FaBiT, University of Bologna, 40126 Bologna, Italy.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Lemaire</LastName>
<ForeName>Stéphane D</ForeName>
<Initials>SD</Initials>
<AffiliationInfo>
<Affiliation>Institut de Biologie Physico-Chimique, UMR8226, CNRS, Sorbonne Université, 75005 Paris, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Sparla</LastName>
<ForeName>Francesca</ForeName>
<Initials>F</Initials>
<AffiliationInfo>
<Affiliation>Department of Pharmacy and Biotechnology-FaBiT, University of Bologna, 40126 Bologna, Italy; francesca.sparla@unibo.it simona.fermani@unibo.it.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Fermani</LastName>
<ForeName>Simona</ForeName>
<Initials>S</Initials>
<Identifier Source="ORCID">0000-0002-3056-3432</Identifier>
<AffiliationInfo>
<Affiliation>Department of Chemistry G. Ciamician, University of Bologna, 40126 Bologna, Italy; francesca.sparla@unibo.it simona.fermani@unibo.it.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
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<DescriptorName UI="D017360" MajorTopicYN="Y">Arabidopsis</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
<QualifierName UI="Q000201" MajorTopicYN="N">enzymology</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D002696" MajorTopicYN="Y">Chlamydomonas</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
<QualifierName UI="Q000201" MajorTopicYN="N">enzymology</QualifierName>
</MeshHeading>
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<MeshHeading>
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<MeshHeading>
<DescriptorName UI="D017853" MajorTopicYN="N">Phosphotransferases (Alcohol Group Acceptor)</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010788" MajorTopicYN="N">Photosynthesis</DescriptorName>
<QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D020543" MajorTopicYN="N">Proteome</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
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<Keyword MajorTopicYN="Y">3D structure</Keyword>
<Keyword MajorTopicYN="Y">Calvin–Benson cycle</Keyword>
<Keyword MajorTopicYN="Y">phosphoribulokinase</Keyword>
<Keyword MajorTopicYN="Y">redox regulation</Keyword>
<Keyword MajorTopicYN="Y">thioredoxin</Keyword>
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<name sortKey="Lemaire, Stephane D" sort="Lemaire, Stephane D" uniqKey="Lemaire S" first="Stéphane D" last="Lemaire">Stéphane D. Lemaire</name>
<name sortKey="Marchand, Christophe H" sort="Marchand, Christophe H" uniqKey="Marchand C" first="Christophe H" last="Marchand">Christophe H. Marchand</name>
</country>
</tree>
</affiliations>
</record>

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   |texte=   Arabidopsis and Chlamydomonas phosphoribulokinase crystal structures complete the redox structural proteome of the Calvin-Benson cycle.
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