{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T03:59:57Z","timestamp":1790481597205,"version":"4.1.0"},"reference-count":64,"publisher":"eLife Sciences Publications, Ltd","license":[{"start":{"date-parts":[[2017,2,13]],"date-time":"2017-02-13T00:00:00Z","timestamp":1486944000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2017,2,13]],"date-time":"2017-02-13T00:00:00Z","timestamp":1486944000000},"content-version":"am","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2017,2,13]],"date-time":"2017-02-13T00:00:00Z","timestamp":1486944000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["MCB-1411836"],"award-info":[{"award-number":["MCB-1411836"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R21AI117882-01"],"award-info":[{"award-number":["R21AI117882-01"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["Intramural"],"award-info":[{"award-number":["Intramural"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["2T32AI051967-06A1"],"award-info":[{"award-number":["2T32AI051967-06A1"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:p>Turnip crinkle virus contains a T-shaped, ribosome-binding, translation enhancer (TSS) in its 3\u2019UTR that serves as a hub for interactions throughout the region. The viral RNA-dependent RNA polymerase (RdRp) causes the TSS\/surrounding region to undergo a conformational shift postulated to inhibit translation. Using optical tweezers (OT) and steered molecular dynamic simulations (SMD), we found that the unusual stability of pseudoknotted element H4a\/\u03a83 required five upstream adenylates, and H4a\/\u03a83 was necessary for cooperative association of two other hairpins (H5\/H4b) in Mg2+. SMD recapitulated the TSS unfolding order in the absence of Mg2+, showed dependence of the resistance to pulling on the 3D orientation and gave structural insights into the measured contour lengths of the TSS structure elements. Adenylate mutations eliminated one-site RdRp binding to the 3\u2019UTR, suggesting that RdRp binding to the adenylates disrupts H4a\/\u03a83, leading to loss of H5\/H4b interaction and promoting a conformational switch interrupting translation and promoting replication.<\/jats:p>","DOI":"10.7554\/elife.22883","type":"journal-article","created":{"date-parts":[[2017,2,10]],"date-time":"2017-02-10T08:00:15Z","timestamp":1486713615000},"source":"Crossref","is-referenced-by-count":15,"title":["Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch"],"prefix":"10.7554","volume":"6","author":[{"given":"My-Tra","family":"Le","sequence":"first","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wojciech K","family":"Kasprzak","sequence":"additional","affiliation":[{"name":"Basic Science Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Taejin","family":"Kim","sequence":"additional","affiliation":[{"name":"RNA Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Feng","family":"Gao","sequence":"additional","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Megan YL","family":"Young","sequence":"additional","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xuefeng","family":"Yuan","sequence":"additional","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bruce A","family":"Shapiro","sequence":"additional","affiliation":[{"name":"RNA Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joonil","family":"Seog","sequence":"additional","affiliation":[{"name":"Department of Materials Science and Engineering, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6121-0704","authenticated-orcid":true,"given":"Anne E","family":"Simon","sequence":"additional","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"4374","published-online":{"date-parts":[[2017,2,13]]},"reference":[{"key":"bib1","doi-asserted-by":"publisher","first-page":"542","DOI":"10.1016\/j.bbagrm.2009.07.005","article-title":"Structural and functional diversity of viral IRESes","volume":"1789","author":"Balvay","year":"2009","journal-title":"Biochimica Et Biophysica Acta (BBA) - Gene Regulatory Mechanisms"},{"key":"bib2","doi-asserted-by":"publisher","first-page":"3684","DOI":"10.1063\/1.448118","article-title":"Molecular dynamics with coupling to an external bath","volume":"81","author":"Berendsen","year":"1984","journal-title":"The Journal of Chemical Physics"},{"key":"bib3","doi-asserted-by":"publisher","first-page":"1895","DOI":"10.1093\/nar\/gks1204","article-title":"McGenus: a monte carlo algorithm to predict RNA secondary structures with pseudoknots","volume":"41","author":"Bon","year":"2013","journal-title":"Nucleic Acids Research"},{"key":"bib4","article-title":"AMBER 14","author":"Case","year":"2014","unstructured":"Case DA, Babin V, Berryman JT, Betz RM, Cai Q, Cerutti DS, Cheatham TE, Darden TA, Duke RE, Gohlke H, Goetz AW, Gusarov S, Homeyer N, Janowski P, Kaus J, Kolossvary I, Kovalenko A, Lee TS, LeGrand S, Luchko T, Luo R, Madej B, Merz KM, Paesani F, Roe DR, Roiberg A, Sagui C, Salomon-Ferrer R, Seabra G, Simmerling CL, Smith W, Swails J, Walker RC, Wang J, Wolf RM, Wu X, Kollman PA. 2014. AMBER 14. San Francisco: University of California."},{"key":"bib5","doi-asserted-by":"publisher","first-page":"11603","DOI":"10.1128\/JVI.01566-15","article-title":"Requirement for host RNA-Silencing components and the Virus-Silencing suppressor when Second-Site mutations compensate for structural defects in the 3' Untranslated region","volume":"89","author":"Chattopadhyay","year":"2015","journal-title":"Journal of Virology"},{"key":"bib6","doi-asserted-by":"publisher","first-page":"2175","DOI":"10.1261\/rna.676707","article-title":"Single-molecule mechanical unfolding and folding of a pseudoknot in human telomerase RNA","volume":"13","author":"Chen","year":"2007","journal-title":"RNA"},{"key":"bib7","doi-asserted-by":"publisher","first-page":"36","DOI":"10.1261\/rna.039909.113","article-title":"Mg(2+)-induced conformational changes in the btuB riboswitch from E. coli","volume":"20","author":"Choudhary","year":"2014","journal-title":"RNA"},{"key":"bib8","doi-asserted-by":"publisher","first-page":"586","DOI":"10.1038\/nature02944","article-title":"Structural basis for packaging the dimeric genome of moloney murine leukaemia virus","volume":"431","author":"D'Souza","year":"2004","journal-title":"Nature"},{"key":"bib9","doi-asserted-by":"publisher","first-page":"10089","DOI":"10.1063\/1.464397","article-title":"Particle mesh Ewald - An n.log(N) method for Ewald sums in large systems","volume":"98","author":"Darden","year":"1993","journal-title":"The Journal of Chemical Physics"},{"key":"bib10","doi-asserted-by":"publisher","first-page":"344","DOI":"10.1261\/rna.7214405","article-title":"SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments","volume":"11","author":"Das","year":"2005","journal-title":"RNA"},{"key":"bib11","doi-asserted-by":"publisher","first-page":"322","DOI":"10.1038\/nature10885","article-title":"Functional complexity and regulation through RNA dynamics","volume":"482","author":"Dethoff","year":"2012","journal-title":"Nature"},{"key":"bib12","doi-asserted-by":"publisher","first-page":"335","DOI":"10.1261\/rna.5205404","article-title":"A guide to ions and RNA structure","volume":"10","author":"Draper","year":"2004","journal-title":"RNA"},{"key":"bib13","doi-asserted-by":"publisher","first-page":"8577","DOI":"10.1063\/1.470117","article-title":"A smooth particle mesh ewald method","volume":"103","author":"Essmann","year":"1995","journal-title":"The Journal of Chemical Physics"},{"key":"bib14","doi-asserted-by":"publisher","first-page":"3181","DOI":"10.1021\/ct200384r","article-title":"Evaluation of DNA force fields in implicit solvation","volume":"7","author":"Gaillard","year":"2011","journal-title":"Journal of Chemical Theory and Computation"},{"key":"bib15","doi-asserted-by":"publisher","first-page":"9828","DOI":"10.1128\/JVI.00677-12","article-title":"A ribosome-binding, 3' translational enhancer has a T-shaped structure and engages in a long-distance RNA-RNA interaction","volume":"86","author":"Gao","year":"2012","journal-title":"Journal of Virology"},{"key":"bib16","doi-asserted-by":"publisher","first-page":"511","DOI":"10.1016\/j.jmb.2007.05.058","article-title":"Characterization of the mechanical unfolding of RNA pseudoknots","volume":"375","author":"Green","year":"2008","journal-title":"Journal of Molecular Biology"},{"key":"bib17","doi-asserted-by":"publisher","first-page":"630","DOI":"10.1126\/science.1151298","article-title":"Direct observation of hierarchical folding in single riboswitch aptamers","volume":"319","author":"Greenleaf","year":"2008","journal-title":"Science"},{"key":"bib18","doi-asserted-by":"publisher","first-page":"14003","DOI":"10.1073\/pnas.0606409103","article-title":"Mg2+-RNA interaction free energies and their relationship to the folding of RNA tertiary structures","volume":"103","author":"Grilley","year":"2006","journal-title":"PNAS"},{"key":"bib19","doi-asserted-by":"publisher","first-page":"122","DOI":"10.1016\/0009-2614(95)01082-K","article-title":"Pairwise solute descreening of solute charges from a dielectric medium","volume":"246","author":"Hawkins","year":"1995","journal-title":"Chemical Physics Letters"},{"key":"bib20","doi-asserted-by":"publisher","first-page":"4360","DOI":"10.1093\/nar\/24.21.4360","article-title":"A simple method for 3'-labeling of RNA","volume":"24","author":"Huang","year":"1996","journal-title":"Nucleic Acids Research"},{"key":"bib21","doi-asserted-by":"publisher","first-page":"143","DOI":"10.1017\/S1355838201001881","article-title":"Two alternating structures of the HIV-1 leader RNA","volume":"7","author":"Huthoff","year":"2001","journal-title":"RNA"},{"key":"bib22","doi-asserted-by":"publisher","first-page":"15847","DOI":"10.1073\/pnas.0607202103","article-title":"Unusual mechanical stability of a minimal RNA kissing complex","volume":"103","author":"Li","year":"2006","journal-title":"PNAS"},{"key":"bib23","doi-asserted-by":"publisher","first-page":"813","DOI":"10.1146\/annurev-biochem-060409-092720","article-title":"Understanding nucleic acid-ion interactions","volume":"83","author":"Lipfert","year":"2014","journal-title":"Annual Review of Biochemistry"},{"key":"bib24","doi-asserted-by":"publisher","first-page":"733","DOI":"10.1126\/science.1058498","article-title":"Reversible unfolding of single RNA molecules by mechanical force","volume":"292","author":"Liphardt","year":"2001","journal-title":"Science"},{"key":"bib25","doi-asserted-by":"publisher","first-page":"e142","DOI":"10.1093\/nar\/gkv716","article-title":"DSSR: an integrated software tool for dissecting the spatial structure of RNA","volume":"43","author":"Lu","year":"2015","journal-title":"Nucleic Acids Research"},{"key":"bib26","doi-asserted-by":"publisher","DOI":"10.1002\/9780471729259.mc16d01s00","article-title":"Callus cultures of arabidopsis","volume":"Chapter 16:Unit16D.1","author":"McCormack","year":"2006","journal-title":"Current Protocol Microbiology"},{"key":"bib27","doi-asserted-by":"publisher","first-page":"8706","DOI":"10.1128\/JVI.00416-08","article-title":"Structural domains within the 3' untranslated region of turnip crinkle virus","volume":"82","author":"McCormack","year":"2008","journal-title":"Journal of Virology"},{"key":"bib28","first-page":"175","volume-title":"Cell Biology and Molecular Genetics\u00a0","author":"McCormack","year":"2007"},{"key":"bib29","doi-asserted-by":"publisher","first-page":"205","DOI":"10.1146\/annurev.biochem.77.043007.090225","article-title":"Recent advances in optical tweezers","volume":"77","author":"Moffitt","year":"2008","journal-title":"Annual Review of Biochemistry"},{"key":"bib30","doi-asserted-by":"publisher","first-page":"3714","DOI":"10.1021\/acs.jctc.5b00271","article-title":"Refinement of generalized born implicit solvation parameters for nucleic acids and their complexes with proteins","volume":"11","author":"Nguyen","year":"2015","journal-title":"Journal of Chemical Theory and Computation"},{"key":"bib31","doi-asserted-by":"publisher","first-page":"1892","DOI":"10.1126\/science.1081338","article-title":"Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme","volume":"299","author":"Onoa","year":"2003","journal-title":"Science"},{"key":"bib32","doi-asserted-by":"publisher","first-page":"2227","DOI":"10.1073\/pnas.1420812112","article-title":"Revealing the density of encoded functions in a viral RNA","volume":"112","author":"Patel","year":"2015","journal-title":"PNAS"},{"key":"bib33","doi-asserted-by":"publisher","first-page":"679","DOI":"10.1007\/s00775-002-0387-6","article-title":"Metal ions in the structure and function of RNA","volume":"7","author":"Pyle","year":"2002","journal-title":"Journal of Biological Inorganic Chemistry"},{"key":"bib34","doi-asserted-by":"publisher","first-page":"1707","DOI":"10.1128\/JVI.76.4.1707-1717.2002","article-title":"Comparison of turnip crinkle virus RNA-dependent RNA polymerase preparations expressed in Escherichia coli or derived from infected plants","volume":"76","author":"Rajendran","year":"2002","journal-title":"Journal of Virology"},{"key":"bib35","doi-asserted-by":"publisher","first-page":"355","DOI":"10.1038\/nature12378","article-title":"Three-state mechanism couples ligand and temperature sensing in riboswitches","volume":"499","author":"Reining","year":"2013","journal-title":"Nature"},{"key":"bib36","doi-asserted-by":"publisher","first-page":"43","DOI":"10.1016\/j.sbi.2015.06.006","article-title":"Probing the structural dynamics of proteins and nucleic acids with optical tweezers","volume":"34","author":"Ritchie","year":"2015","journal-title":"Current Opinion in Structural Biology"},{"key":"bib37","doi-asserted-by":"publisher","first-page":"776","DOI":"10.1038\/nrg2172","article-title":"Ribozymes, riboswitches and beyond: regulation of gene expression without proteins","volume":"8","author":"Serganov","year":"2007","journal-title":"Nature Reviews Genetics"},{"key":"bib38","doi-asserted-by":"publisher","first-page":"571","DOI":"10.1016\/j.bbagrm.2009.05.005","article-title":"RNA conformational changes in the life cycles of RNA viruses, viroids, and virus-associated RNAs","volume":"1789","author":"Simon","year":"2009","journal-title":"Biochimica Et Biophysica Acta (BBA) - Gene Regulatory Mechanisms"},{"key":"bib39","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1146\/annurev-micro-092412-155609","article-title":"3' cap-independent translation enhancers of plant viruses","volume":"67","author":"Simon","year":"2013","journal-title":"Annual Review of Microbiology"},{"key":"bib40","doi-asserted-by":"publisher","first-page":"1308","DOI":"10.1017\/S1355838299990891","article-title":"Relationship between internucleotide linkage geometry and the stability of RNA","volume":"5","author":"Soukup","year":"1999","journal-title":"RNA"},{"key":"bib41","doi-asserted-by":"publisher","first-page":"344","DOI":"10.1016\/j.sbi.2004.04.007","article-title":"Riboswitches exert genetic control through metabolite-induced conformational change","volume":"14","author":"Soukup","year":"2004","journal-title":"Current Opinion in Structural Biology"},{"key":"bib42","doi-asserted-by":"publisher","first-page":"1747","DOI":"10.1261\/rna.2816711","article-title":"A conserved RNA pseudoknot in a putative molecular switch domain of the 3'-untranslated region of coronaviruses is only marginally stable","volume":"17","author":"Stammler","year":"2011","journal-title":"RNA"},{"key":"bib43","doi-asserted-by":"publisher","first-page":"2379","DOI":"10.1261\/rna.1227808","article-title":"The 3' proximal translational enhancer of turnip crinkle virus binds to 60S ribosomal subunits","volume":"14","author":"Stupina","year":"2008","journal-title":"RNA"},{"key":"bib44","doi-asserted-by":"publisher","first-page":"4638","DOI":"10.1128\/JVI.00005-11","article-title":"Ribosome binding to a 5' translational enhancer is altered in the presence of the 3' untranslated region in cap-independent translation of turnip crinkle virus","volume":"85","author":"Stupina","year":"2011","journal-title":"Journal of Virology"},{"key":"bib45","doi-asserted-by":"publisher","first-page":"14075","DOI":"10.1021\/jacs.5b09740","article-title":"Mg(2+) shifts ligand-mediated folding of a riboswitch from induced-fit to conformational selection","volume":"137","author":"Suddala","year":"2015","journal-title":"Journal of the American Chemical Society"},{"key":"bib46","doi-asserted-by":"publisher","first-page":"39","DOI":"10.1016\/j.virol.2006.03.051","article-title":"A cis-replication element functions in both orientations to enhance replication of turnip crinkle virus","volume":"352","author":"Sun","year":"2006","journal-title":"Virology"},{"key":"bib47","doi-asserted-by":"publisher","first-page":"176","DOI":"10.1016\/j.bpj.2011.05.050","article-title":"Salt contribution to RNA tertiary structure folding stability","volume":"101","author":"Tan","year":"2011","journal-title":"Biophysical Journal"},{"key":"bib48","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1017\/S0033583506004446","article-title":"Determination of thermodynamics and kinetics of RNA reactions by force","volume":"39","author":"Tinoco","year":"2006","journal-title":"Quarterly Reviews of Biophysics"},{"key":"bib49","doi-asserted-by":"publisher","first-page":"2489","DOI":"10.1021\/ja9939385","article-title":"Molecular dynamics simulations of nucleic acids with a generalized born solvation model","volume":"122","author":"Tsui","year":"2000","journal-title":"Journal of the American Chemical Society"},{"key":"bib50","doi-asserted-by":"publisher","first-page":"275","DOI":"10.1002\/1097-0282(2000)56:4<275::AID-BIP10024>3.0.CO;2-E","article-title":"Theory and applications of the generalized born solvation model in macromolecular simulations","volume":"56","author":"Tsui","year":"2000","journal-title":"Biopolymers"},{"key":"bib51","doi-asserted-by":"publisher","first-page":"6625","DOI":"10.1093\/nar\/gkm585","article-title":"An RNA toolbox for single-molecule force spectroscopy studies","volume":"35","author":"Vilfan","year":"2007","journal-title":"Nucleic Acids Research"},{"key":"bib52","doi-asserted-by":"publisher","first-page":"1335","DOI":"10.1016\/S0006-3495(97)78780-0","article-title":"Stretching DNA with optical tweezers","volume":"72","author":"Wang","year":"1997","journal-title":"Biophysical Journal"},{"key":"bib53","doi-asserted-by":"publisher","first-page":"2996","DOI":"10.1529\/biophysj.106.094052","article-title":"Force unfolding kinetics of RNA using optical tweezers. I. effects of experimental variables on measured results","volume":"92","author":"Wen","year":"2007","journal-title":"Biophysical Journal"},{"key":"bib54","doi-asserted-by":"publisher","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"},{"key":"bib55","doi-asserted-by":"publisher","first-page":"104","DOI":"10.1016\/j.cbpa.2005.02.004","article-title":"Metal ions and RNA folding: a highly charged topic with a dynamic future","volume":"9","author":"Woodson","year":"2005","journal-title":"Current Opinion in Chemical Biology"},{"key":"bib56","doi-asserted-by":"publisher","first-page":"1849","DOI":"10.1261\/rna.1708709","article-title":"The 3' end of turnip crinkle virus contains a highly interactive structure including a translational enhancer that is disrupted by binding to the RNA-dependent RNA polymerase","volume":"15","author":"Yuan","year":"2009","journal-title":"RNA"},{"key":"bib57","doi-asserted-by":"publisher","first-page":"4065","DOI":"10.1128\/JVI.07019-11","article-title":"A local, interactive network of 3' RNA elements supports translation and replication of turnip crinkle virus","volume":"86","author":"Yuan","year":"2012","journal-title":"Journal of Virology"},{"key":"bib58","doi-asserted-by":"publisher","first-page":"271","DOI":"10.1016\/j.virol.2010.03.036","article-title":"The terminal loop of a 3' proximal hairpin plays a critical role in replication and the structure of the 3' region of turnip crinkle virus","volume":"402","author":"Yuan","year":"2010","journal-title":"Virology"},{"key":"bib59","doi-asserted-by":"publisher","first-page":"2886","DOI":"10.1021\/ct200162x","article-title":"Refinement of the cornell et al. nucleic acids force field based on reference quantum chemical calculations of glycosidic torsion profiles","volume":"7","author":"Zgarbov\u00e1","year":"2011","journal-title":"Journal of Chemical Theory and Computation"},{"key":"bib60","doi-asserted-by":"publisher","first-page":"9181","DOI":"10.1128\/JVI.00295-06","article-title":"A pseudoknot in a preactive form of a viral RNA is part of a structural switch activating minus-strand synthesis","volume":"80","author":"Zhang","year":"2006","journal-title":"Journal of Virology"},{"key":"bib61","doi-asserted-by":"publisher","first-page":"476","DOI":"10.1016\/j.virol.2006.03.011","article-title":"Evolution of virus-derived sequences for high-level replication of a subviral RNA","volume":"351","author":"Zhang","year":"2006","journal-title":"Virology"},{"key":"bib62","doi-asserted-by":"publisher","first-page":"e115","DOI":"10.1093\/nar\/gnh110","article-title":"An efficient one-step site-directed and site-saturation mutagenesis protocol","volume":"32","author":"Zheng","year":"2004","journal-title":"Nucleic Acids Research"},{"key":"bib63","doi-asserted-by":"publisher","first-page":"3406","DOI":"10.1093\/nar\/gkg595","article-title":"Mfold web server for nucleic acid folding and hybridization prediction","volume":"31","author":"Zuker","year":"2003","journal-title":"Nucleic Acids Research"},{"key":"bib64","doi-asserted-by":"publisher","first-page":"1385","DOI":"10.1073\/pnas.0908140107","article-title":"Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus","volume":"107","author":"Zuo","year":"2010","journal-title":"PNAS"}],"container-title":["eLife"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/cdn.elifesciences.org\/articles\/22883\/elife-22883-v3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/cdn.elifesciences.org\/articles\/22883\/elife-22883-v3.xml","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/elifesciences.org\/articles\/22883","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,10,11]],"date-time":"2023-10-11T20:49:26Z","timestamp":1697057366000},"score":1,"resource":{"primary":{"URL":"https:\/\/elifesciences.org\/articles\/22883"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,2,13]]},"references-count":64,"alternative-id":["10.7554\/eLife.22883"],"URL":"https:\/\/doi.org\/10.7554\/elife.22883","archive":["CLOCKSS"],"relation":{"has-review":[{"id-type":"doi","id":"10.7554\/eLife.22883.018","asserted-by":"object"},{"id-type":"doi","id":"10.7554\/eLife.22883.019","asserted-by":"object"}]},"ISSN":["2050-084X"],"issn-type":[{"value":"2050-084X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,2,13]]},"article-number":"e22883"}}