{ "labelLang" : "hun", "responseDate" : "2024-03-28 09:50", "content" : { "otype" : "JournalArticle", "mtid" : 32188279, "status" : "VALIDATED", "published" : true, "comment" : "The Hamburg Advanced Research Center for Bioorganic Chemistry (HARBOR) & Department of Chemistry, Institute for Biochemistry and Molecular Biology, University of Hamburg, Germany \n MRC Laboratory of Molecular Biology, Cambridge, United Kingdom \n Department of Biochemistry and Molecular Cell Biology, University Medical Centre Hamburg-Eppendorf, Germany \n Export Date: 10 September 2021 \n CODEN: FJEOA \n Correspondence Address: Tidow, H.; The Hamburg Advanced Research Center for Bioorganic Chemistry (HARBOR) & Department of Chemistry, Germany; email: tidow@chemie.uni-hamburg.de \n Funding details: SFB1328 \n Funding details: Deutsche Forschungsgemeinschaft, DFG, EXC 1074 \n Funding text 1: We thank members of the Fliegert and Tidow laboratories for helpful discussions. The synchrotron SAXS data were collected at beamline P12 operated by EMBL Hamburg at the PETRA III storage ring (DESY, Hamburg, Germany). We acknowledge access to the Sample Preparation and Characterization (SPC) Facility of EMBL (Hamburg). This research was funded by the Collaborative Research Centre SFB1328 and the excellence cluster ‘The Hamburg Centre for Ultrafast Imaging ‐ Structure, Dynamics and Control of Matter at the Atomic Scale’ of the Deutsche Forschungsgemeinschaft (DFG EXC 1074).\nThe Hamburg Advanced Research Center for Bioorganic Chemistry (HARBOR) & Department of Chemistry, Institute for Biochemistry and Molecular Biology, University of Hamburg, Germany \n MRC Laboratory of Molecular Biology, Cambridge, United Kingdom \n Department of Biochemistry and Molecular Cell Biology, University Medical Centre Hamburg-Eppendorf, Germany \n Export Date: 13 September 2021 \n CODEN: FJEOA \n Correspondence Address: Tidow, H.; The Hamburg Advanced Research Center for Bioorganic Chemistry (HARBOR) & Department of Chemistry, Germany; email: tidow@chemie.uni-hamburg.de \n Funding details: SFB1328 \n Funding details: Deutsche Forschungsgemeinschaft, DFG, EXC 1074 \n Funding text 1: We thank members of the Fliegert and Tidow laboratories for helpful discussions. The synchrotron SAXS data were collected at beamline P12 operated by EMBL Hamburg at the PETRA III storage ring (DESY, Hamburg, Germany). We acknowledge access to the Sample Preparation and Characterization (SPC) Facility of EMBL (Hamburg). This research was funded by the Collaborative Research Centre SFB1328 and the excellence cluster ‘The Hamburg Centre for Ultrafast Imaging ‐ Structure, Dynamics and Control of Matter at the Atomic Scale’ of the Deutsche Forschungsgemeinschaft (DFG EXC 1074).", "unhandledTickets" : 0, "deleted" : false, "lastRefresh" : "2022-11-15T23:42:33.674+0000", "lastModified" : "2021-10-15T23:55:48.274+0000", "created" : "2021-09-10T09:17:54.055+0000", "creator" : { "otype" : "Admin", "mtid" : 10054198, "link" : "/api/admin/10054198", "label" : "Bökönyi Zita (SE_AOK_OBI_Admin5_BZ, admin)", "familyName" : "Bökönyi", "givenName" : "Zita", "published" : true, "oldId" : 10054198, "snippet" : true }, "lastDuplumSearch" : "2022-11-15T23:41:09.087+0000", "validated" : "2021-10-15T23:55:44.722+0000", "validator" : { "otype" : "Admin", "mtid" : 10067876, "link" : "/api/admin/10067876", "label" : "MTMT API (MTMT API user, admin)", "familyName" : "MTMT", "givenName" : "API", "published" : true, "snippet" : 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"Analysis of ligand binding and resulting conformational changes in pyrophosphatase NUDT9", "identifiers" : [ { "otype" : "PublicationIdentifier", "mtid" : 19245139, "link" : "/api/publicationidentifier/19245139", "label" : "DOI: 10.1111/febs.16097", "source" : { "otype" : "PlainSource", "mtid" : 6, "link" : "/api/publicationsource/6", "label" : "DOI", "type" : { "otype" : "PublicationSourceType", "mtid" : 10001, "link" : "/api/publicationsourcetype/10001", "label" : "DOI", "mayHaveOa" : true, "published" : true, "snippet" : true }, "name" : "DOI", "nameEng" : "DOI", "linkPattern" : "https://doi.org/@@@", "publiclyVisible" : true, "published" : true, "oldId" : 6, "snippet" : true }, "validState" : "IDENTICAL", "idValue" : "10.1111/febs.16097", "realUrl" : "https://doi.org/10.1111/febs.16097", "published" : false, "snippet" : true }, { "otype" : "PublicationIdentifier", "mtid" : 19245140, "link" : "/api/publicationidentifier/19245140", "label" : "WoS: 000674435300001", "source" : { 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spectrum of organic pyrophosphates from metabolic processes. ADP-ribose (ADPR) has been the only known endogenous substrate accepted by NUDT9 so far. The Ca2+-permeable transient receptor potential melastatin subfamily 2 (TRPM2) channel contains a homologous NUDT9-homology (NUDT9H) domain and is activated by ADPR. Sustained Ca2+ influx via ADPR-activated TRPM2 triggers apoptotic mechanisms. Thus, a precise regulation of cellular ADPR levels by NUDT9 is essential. A detailed characterization of the enzyme-substrate interaction would help to understand the high substrate specificity of NUDT9. Here, we analysed ligand binding to NUDT9 using a variety of biophysical techniques. We identified 2′-deoxy-ADPR as an additional substrate for NUDT9. Similar enzyme kinetics and binding affinities were determined for the two ligands. The high-affinity binding was preserved in NUDT9 containing the mutated NUDIX box derived from the human NUDT9H domain. NMR spectroscopy indicated that ADPR and 2′-deoxy-ADPR bind to the same binding site of NUDT9. Backbone resonance assignment and subsequent molecular docking allowed further characterization of the binding pocket. Substantial conformational changes of NUDT9 upon ligand binding were observed which might allow for the development of NUDT9-based ADPR fluorescence resonance energy transfer sensors that may help with the analysis of ADPR signalling processes in cells in the future. © 2021 The Authors. The FEBS Journal published by John Wiley & Sons Ltd on behalf of Federation of European Biochemical Societies", "keywords" : [ { "otype" : "Keyword", "mtid" : 945, "link" : "/api/keyword/945", "label" : "LIGAND", "published" : true, "oldId" : 945, "snippet" : true }, { "otype" : "Keyword", "mtid" : 2466, "link" : "/api/keyword/2466", "label" : "CONFORMATIONAL CHANGE", "published" : true, "oldId" : 2466, "snippet" : true }, { "otype" : "Keyword", "mtid" : 1533642, "link" : "/api/keyword/1533642", "label" : "TRPM2", "published" : true, "snippet" : true }, { "otype" : "Keyword", "mtid" : 1533645, "link" : "/api/keyword/1533645", "label" : "ADPR", "published" : true, "snippet" : true }, { "otype" : "Keyword", "mtid" : 1701589, "link" : "/api/keyword/1701589", "label" : "Pyrophosphatase", "published" : true, "snippet" : true }, { "otype" : "Keyword", "mtid" : 2347515, "link" : "/api/keyword/2347515", "label" : "FRET sensor", "published" : true, "snippet" : true } ], "digital" : null, "printed" : null, "sourceYear" : 2021, "foreignEdition" : true, "foreignLanguage" : true, "fullPublication" : true, "conferencePublication" : false, "nationalOrigin" : null, "missingAuthor" : false, "oaType" : "NONE", "oaCheckDate" : "2022-11-16", "oaFree" : false, "citationCount" : 0, "citationCountUnpublished" : 0, "citationCountWoOther" : 0, "independentCitCountWoOther" : 0, "doiCitationCount" : 0, "wosCitationCount" : 0, "scopusCitationCount" : 0, "independentCitationCount" : 0, "unhandledCitationCount" : 0, "citingPubCount" : 0, "independentCitingPubCount" : 0, "unhandledCitingPubCount" : 0, "citedPubCount" : 2, "citedCount" : 2, "ratings" : [ { "otype" : "SjrRating", "mtid" : 11196135, "link" : "/api/sjrrating/11196135", "label" : "sjr:Q1 (2021) Scopus - Biochemistry FEBS JOURNAL 1742-464X 1742-4658", "listPos" : 57, "rankValue" : 0.24, "type" : "journal", "ratingType" : { "otype" : "RatingType", "mtid" : 10002, "link" : "/api/ratingtype/10002", "label" : "sjr", "code" : "sjr", "published" : true, "snippet" : true }, "subject" : { "otype" : "ClassificationExternal", "mtid" : 1303, "link" : "/api/classificationexternal/1303", "label" : "Scopus - Biochemistry", "published" : true, "oldId" : 1303, "snippet" : true }, "ranking" : "Q1", "calculation" : "DIRECT", "published" : true, "snippet" : true } ], "ratingsForSort" : "Q1", "references" : [ { "otype" : "Reference", "mtid" : 22986130, "link" : "/api/reference/22986130", "label" : "1. 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