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dc.contributor.authorLuzarowski, Marcin
dc.contributor.authorVicente, Rubén
dc.contributor.authorKiselev, Andrei
dc.contributor.authorWagner, Mateusz
dc.contributor.authorSchlossarek, Dennis
dc.contributor.authorErban, Alexander
dc.contributor.authorde Souza, Leonardo Perez
dc.contributor.authorChilds, Dorothee
dc.contributor.authorWojciechowska, Izabela
dc.contributor.authorLuzarowska, Urszula
dc.contributor.authorGórka, Michał
dc.contributor.authorSokołowska, Ewelina M.
dc.contributor.authorKosmacz, Monika
dc.contributor.authorMoreno, Juan C.
dc.contributor.authorBrzezińska, Aleksandra
dc.contributor.authorVegesna, Bhavana
dc.contributor.authorKopka, Joachim
dc.contributor.authorFernie, Alisdair R.
dc.contributor.authorWillmitzer, Lothar
dc.contributor.authorEwald, Jennifer C.
dc.contributor.authorSkirycz, Aleksandra
dc.date.accessioned2021-02-14T06:37:19Z
dc.date.available2021-02-14T06:37:19Z
dc.date.issued2021-02-10
dc.date.submitted2020-05-27
dc.identifier.citationLuzarowski, M., Vicente, R., Kiselev, A., Wagner, M., Schlossarek, D., Erban, A., … Skirycz, A. (2021). Global mapping of protein–metabolite interactions in Saccharomyces cerevisiae reveals that Ser-Leu dipeptide regulates phosphoglycerate kinase activity. Communications Biology, 4(1). doi:10.1038/s42003-021-01684-3
dc.identifier.issn2399-3642
dc.identifier.pmid33568709
dc.identifier.doi10.1038/s42003-021-01684-3
dc.identifier.urihttp://hdl.handle.net/10754/667366
dc.description.abstractAbstractProtein–metabolite interactions are of crucial importance for all cellular processes but remain understudied. Here, we applied a biochemical approach named PROMIS, to address the complexity of the protein–small molecule interactome in the model yeast Saccharomyces cerevisiae. By doing so, we provide a unique dataset, which can be queried for interactions between 74 small molecules and 3982 proteins using a user-friendly interface available at https://promis.mpimp-golm.mpg.de/yeastpmi/. By interpolating PROMIS with the list of predicted protein–metabolite interactions, we provided experimental validation for 225 binding events. Remarkably, of the 74 small molecules co-eluting with proteins, 36 were proteogenic dipeptides. Targeted analysis of a representative dipeptide, Ser-Leu, revealed numerous protein interactors comprising chaperones, proteasomal subunits, and metabolic enzymes. We could further demonstrate that Ser-Leu binding increases activity of a glycolytic enzyme phosphoglycerate kinase (Pgk1). Consistent with the binding analysis, Ser-Leu supplementation leads to the acute metabolic changes and delays timing of a diauxic shift. Supported by the dipeptide accumulation analysis our work attests to the role of Ser-Leu as a metabolic regulator at the interface of protein degradation and central metabolism.
dc.description.sponsorshipWe thank Änne Michaelis and Fatıma Şen for excellent technical assistance; Krzysztof Bajdzienko, Dariusz Bienkowski and Andreas Donath for help with establishing a user-friendly interface; and Prof. Dr. Zoran Nikoloski for a careful read of the manuscript and valuable comments
dc.description.sponsorshipOpen Access funding enabled and organized by Projekt DEAL.
dc.publisherSpringer Nature
dc.relation.urlhttp://www.nature.com/articles/s42003-021-01684-3
dc.rightsThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.titleGlobal mapping of protein–metabolite interactions in Saccharomyces cerevisiae reveals that Ser-Leu dipeptide regulates phosphoglycerate kinase activity
dc.typeArticle
dc.contributor.departmentCenter for Desert Agriculture, Biological and Environmental Science and Engineering Division (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia.
dc.contributor.departmentDesert Agriculture Initiative
dc.identifier.journalCommunications Biology
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionDepartment of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany.
dc.contributor.institutionDepartment of Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany.
dc.contributor.institutionLaboratoire de Recherche en Sciences Végétales (LRSV), UPS/CNRS, UMR, Castanet Tolosan, France.
dc.contributor.institutionUniversity of Wrocław, Faculty of Biotechnology, Laboratory of Medical Biology, Wrocław, Poland.
dc.contributor.institutionDepartment of Genome Biology, European Molecular Biology Laboratory, Heidelberg, Germany.
dc.contributor.institutionDepartment of Life Sciences, Ben-Gurion University of the Negev, Beer-Sheva, Israel.
dc.contributor.institutionInterfaculty Institute of Cell Biology, Eberhard Karls University of Tuebingen, Tuebingen, Germany.
dc.contributor.institutionBoyce Thompson Institute, Ithaca, NY, USA.
dc.identifier.volume4
dc.identifier.issue1
kaust.personKosmacz, Monika
kaust.personMoreno, Juan C.
dc.date.accepted2021-01-08
dc.relation.issupplementedbyDOI:10.5281/zenodo.4146637
refterms.dateFOA2021-02-14T06:39:01Z
display.relations<b>Is Supplemented By:</b><br/> <ul><li><i>[Software]</i> <br/> Marcin-Luzarowski. (2020). <i>Marcin-Luzarowski/PROMIS: First release of code allowing analysis of PMI using PROMIS</i> (Version v1.0.0) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.4146637. DOI: <a href="https://doi.org/10.5281/zenodo.4146637" >10.5281/zenodo.4146637</a> Handle: <a href="http://hdl.handle.net/10754/667434" >10754/667434</a></a></li></ul>


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This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
Except where otherwise noted, this item's license is described as This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.