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Native top-down mass spectrometry (MS) has recently been extended to binding site mapping of RNA\u2013ligand interactions by collisionally activated dissociation, without the need for laborious sample preparation procedures. The technique relies on the preservation of noncovalent interactions at energies that are sufficiently high to cause RNA backbone cleavage. In this study, we address the question of how many and what types of noncovalent interactions allow for binding site mapping by top-down MS. We show that proton transfer from protonated ligand to deprotonated RNA within salt bridges initiates loss of the ligand, but that proton transfer becomes energetically unfavorable in the presence of additional hydrogen bonds such that the noncovalent interactions remain stronger than the covalent RNA backbone bonds.<\/jats:p>","DOI":"10.1021\/acs.analchem.8b05387","type":"journal-article","created":{"date-parts":[[2019,1,8]],"date-time":"2019-01-08T12:48:20Z","timestamp":1546951700000},"page":"1659-1664","source":"Crossref","is-referenced-by-count":15,"title":["Relative Strength of Noncovalent Interactions and\nCovalent Backbone Bonds in Gaseous RNA\u2013Peptide Complexes"],"prefix":"10.1021","volume":"91","author":[{"given":"Jovana","family":"Vus\u030curovic\u0301","sequence":"first","affiliation":[{"name":"Universita\u0308t Innsbruck , , Innrain 80-82 , ,","place":["Innsbruck, Austria, 6020"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4978-0883","authenticated-orcid":true,"given":"Kathrin","family":"Breuker","sequence":"additional","affiliation":[{"name":"Universita\u0308t Innsbruck , , Innrain 80-82 , ,","place":["Innsbruck, Austria, 6020"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"316","published-online":{"date-parts":[[2019,1,7]]},"reference":[{"key":"2026090315273622600_cit1","doi-asserted-by":"publisher","first-page":"1541","DOI":"10.1016\/j.str.2013.08.002","volume":"21","author":"Marcoux","year":"2013","journal-title":"Structure"},{"key":"2026090315273622600_cit2","doi-asserted-by":"publisher","first-page":"2634","DOI":"10.15252\/embj.201694818","volume":"35","author":"Lossl","year":"2016","journal-title":"EMBO J."},{"key":"2026090315273622600_cit3","doi-asserted-by":"publisher","first-page":"114","DOI":"10.1038\/nchem.2936","volume":"10","author":"Breuker","year":"2018","journal-title":"Nat. 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