{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T22:00:17Z","timestamp":1790805617409,"version":"4.1.0"},"reference-count":26,"publisher":"Elsevier","isbn-type":[{"value":"9780443473289","type":"print"}],"license":[{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R35GM141706"],"award-info":[{"award-number":["R35GM141706"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["T32 GM112584"],"award-info":[{"award-number":["T32 GM112584"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026]]},"DOI":"10.1016\/bs.mie.2026.06.024","type":"book-chapter","created":{"date-parts":[[2026,7,2]],"date-time":"2026-07-02T20:27:52Z","timestamp":1783024072000},"page":"351-373","source":"Crossref","is-referenced-by-count":0,"title":["Scaffold engineering enables high-resolution cryo-EM analysis of thiamine pyrophosphate riboswitch architecture and dynamics"],"prefix":"10.1016","author":[{"given":"Madison M.","family":"Maille","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Boris","family":"Rudolfs","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel B.","family":"Haack","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Navtej","family":"Toor","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/bs.mie.2026.06.024_bib1","doi-asserted-by":"crossref","first-page":"4197","DOI":"10.1038\/s41598-019-40875-1","article-title":"Unraveling RNA dynamical behavior of TPP riboswitches: A comparison between Escherichia coli and Arabidopsis thaliana","volume":"9","author":"Antunes","year":"2019","journal-title":"Scientific Reports"},{"key":"10.1016\/bs.mie.2026.06.024_bib2","doi-asserted-by":"crossref","DOI":"10.1016\/j.sbi.2024.102894","article-title":"Challenges, advances, and opportunities in RNA structural biology by Cryo-EM","volume":"88","author":"Bonilla","year":"2024","journal-title":"Current Opinion in Structural Biology"},{"issue":"18","key":"10.1016\/bs.mie.2026.06.024_bib3","doi-asserted-by":"crossref","DOI":"10.1016\/j.jmb.2022.167802","article-title":"The promise of cryo-EM to explore RNA structural dynamics","volume":"434","author":"Bonilla","year":"2022","journal-title":"Journal of Molecular Biology"},{"key":"10.1016\/bs.mie.2026.06.024_bib4","doi-asserted-by":"crossref","first-page":"2126","DOI":"10.1107\/S0907444904019158","article-title":"Coot: Model-building tools for molecular graphics","volume":"60","author":"Emsley","year":"2004","journal-title":"Acta Crystallographica. Section D, Biological Crystallography"},{"issue":"6","key":"10.1016\/bs.mie.2026.06.024_bib5","doi-asserted-by":"crossref","first-page":"a003533","DOI":"10.1101\/cshperspect.a003533","article-title":"Riboswitches: Structures and mechanisms","volume":"3","author":"Garst","year":"2011","journal-title":"Cold Spring Harbor Perspectives in Biology"},{"issue":"1","key":"10.1016\/bs.mie.2026.06.024_bib6","doi-asserted-by":"crossref","first-page":"880","DOI":"10.1038\/s41467-024-55699-5","article-title":"Scaffold-enabled high-resolution cryo-EM structure determination of RNA","volume":"16","author":"Haack","year":"2025","journal-title":"Nature Communications"},{"key":"10.1016\/bs.mie.2026.06.024_bib7","doi-asserted-by":"crossref","first-page":"774","DOI":"10.1016\/j.molcel.2010.11.026","article-title":"Structural insights into ligand recognition by a sensing domain of the cooperative glycine riboswitch","volume":"40","author":"Huang","year":"2010","journal-title":"Molecular Cell"},{"issue":"11","key":"10.1016\/bs.mie.2026.06.024_bib8","doi-asserted-by":"crossref","DOI":"10.1128\/jb.00308-25","article-title":"Functional analysis of thiamine pyrophosphate-responsive riboswitches in human bacterial pathogens of the ESKAPE group using a dual-luciferase reporter gene assay","volume":"207","author":"H\u00fcbenthal","year":"2025","journal-title":"Journal of Bacteriology"},{"key":"10.1016\/bs.mie.2026.06.024_bib9","doi-asserted-by":"crossref","first-page":"24626","DOI":"10.1074\/jbc.M111.230375","article-title":"Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation","volume":"286","author":"Jenkins","year":"2011","journal-title":"The Journal of Biological Chemistry"},{"issue":"7","key":"10.1016\/bs.mie.2026.06.024_bib10","doi-asserted-by":"crossref","first-page":"848","DOI":"10.1016\/j.str.2023.05.003","article-title":"Crystal structure of Escherichia coli thiamine pyrophosphate-sensing riboswitch in the apo state","volume":"31","author":"Lee","year":"2023","journal-title":"Structure (London, England: 1993)"},{"issue":"7","key":"10.1016\/bs.mie.2026.06.024_bib11","doi-asserted-by":"crossref","first-page":"995","DOI":"10.1261\/rna.061234.117","article-title":"Riboswitch diversity and distribution","volume":"23","author":"McCown","year":"2017","journal-title":"RNA (New York, N. Y.)"},{"issue":"1","key":"10.1016\/bs.mie.2026.06.024_bib12","doi-asserted-by":"crossref","first-page":"5563","DOI":"10.1038\/s41598-018-23900-7","article-title":"Phylogenomic and comparative analysis of the distribution and regulatory patterns of TPP riboswitches in fungi","volume":"8","author":"Mukherjee","year":"2018","journal-title":"Scientific Reports"},{"key":"10.1016\/bs.mie.2026.06.024_bib13","doi-asserted-by":"crossref","DOI":"10.1016\/j.jbc.2024.105730","article-title":"Flipping the script: Understanding riboswitches from an alternative perspective","volume":"300","author":"Olenginski","year":"2024","journal-title":"The Journal of Biological Chemistry"},{"issue":"1","key":"10.1016\/bs.mie.2026.06.024_bib14","doi-asserted-by":"crossref","first-page":"45","DOI":"10.3390\/antibiotics10010045","article-title":"Riboswitches as drug targets for antibiotics","volume":"10","author":"Panchal","year":"2021","journal-title":"Antibiotics (Basel)"},{"key":"10.1016\/bs.mie.2026.06.024_bib15","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1038\/nmeth.4169","article-title":"cryoSPARC: Algorithms for rapid unsupervised cryo-EM structure determination","volume":"14","author":"Punjani","year":"2017","journal-title":"Nature Methods"},{"key":"10.1016\/bs.mie.2026.06.024_bib16","doi-asserted-by":"crossref","first-page":"1214","DOI":"10.1038\/s41592-020-00990-8","article-title":"Non-uniform refinement: Adaptive regularization improves single-particle cryo-EM reconstruction","volume":"17","author":"Punjani","year":"2020","journal-title":"Nature Methods"},{"issue":"3","key":"10.1016\/bs.mie.2026.06.024_bib17","doi-asserted-by":"crossref","first-page":"519","DOI":"10.1016\/j.jsb.2012.09.006","article-title":"RELION: Implementation of a Bayesian approach to cryo-EM structure determination","volume":"180","author":"Scheres","year":"2012","journal-title":"Journal of Structural Biology"},{"issue":"14","key":"10.1016\/bs.mie.2026.06.024_bib18","doi-asserted-by":"crossref","first-page":"8146","DOI":"10.1093\/nar\/gkaa546","article-title":"Analysis of a preQ1-I riboswitch in effector-free and bound states reveals a metabolite-programmed nucleobase-stacking spine that controls gene regulation","volume":"48","author":"Schroeder","year":"2020","journal-title":"Nucleic Acids Research"},{"key":"10.1016\/bs.mie.2026.06.024_bib19","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1038\/nature04740","article-title":"Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch","volume":"441","author":"Serganov","year":"2006","journal-title":"Nature"},{"key":"10.1016\/bs.mie.2026.06.024_bib20","first-page":"3","article-title":"Real-time crystallographic studies of the adenine riboswitch using an X-ray free-electron laser","volume":"374284","author":"Stagno","year":"2017","journal-title":"The FEBS Journal"},{"issue":"7","key":"10.1016\/bs.mie.2026.06.024_bib21","doi-asserted-by":"crossref","first-page":"787","DOI":"10.1016\/j.str.2010.04.006","article-title":"Free state conformational sampling of the SAM-I riboswitch aptamer domain","volume":"18","author":"Stoddard","year":"2010","journal-title":"Structure (London, England: 1993)"},{"issue":"7","key":"10.1016\/bs.mie.2026.06.024_bib22","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0235431","article-title":"Identification and characterisation of thiamine pyrophosphate (TPP) riboswitch in Elaeis guineensis","volume":"15","author":"Subki","year":"2020","journal-title":"PLoS One"},{"issue":"5777","key":"10.1016\/bs.mie.2026.06.024_bib23","doi-asserted-by":"crossref","first-page":"1208","DOI":"10.1126\/science.1128451","article-title":"Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand","volume":"312","author":"Thore","year":"2006","journal-title":"Science (New York, N. Y.)"},{"key":"10.1016\/bs.mie.2026.06.024_bib24","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1126\/science.1153803","article-title":"Crystal structure of a self-spliced group II intron","volume":"320","author":"Toor","year":"2008","journal-title":"Science (New York, N. Y.)"},{"key":"10.1016\/bs.mie.2026.06.024_bib25","doi-asserted-by":"crossref","first-page":"1024","DOI":"10.1002\/cbic.200300685","article-title":"Genetic control by metabolite-binding riboswitches","volume":"4","author":"Winkler","year":"2003","journal-title":"Chembiochem: a European Journal of Chemical Biology"},{"issue":"6910","key":"10.1016\/bs.mie.2026.06.024_bib26","doi-asserted-by":"crossref","first-page":"952","DOI":"10.1038\/nature01145","article-title":"Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression","volume":"419","author":"Winkler","year":"2002","journal-title":"Nature"}],"container-title":["Methods in Enzymology","Thiamine and Thiamine-Pyrophosphate (TPP) Riboswitches"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0076687926002387?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0076687926002387?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T21:33:10Z","timestamp":1790803990000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0076687926002387"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026]]},"ISBN":["9780443473289"],"references-count":26,"URL":"https:\/\/doi.org\/10.1016\/bs.mie.2026.06.024","relation":{},"ISSN":["0076-6879"],"issn-type":[{"value":"0076-6879","type":"print"}],"subject":[],"published":{"date-parts":[[2026]]}}}