{"id":"https://openalex.org/W3194817831","doi":null,"title":"Unfolding and Binding Thermodynamics of the PREQ1 DNA Analog","display_name":"Unfolding and Binding Thermodynamics of the PREQ1 DNA Analog","publication_year":2021,"publication_date":"2021-08-12","ids":{"openalex":"https://openalex.org/W3194817831","mag":"3194817831"},"language":"en","primary_location":{"id":"pmh:oai:digitalcommons.unmc.edu:surp2021-1059","doi":null,"is_oa":true,"landing_page_url":"https://digitalcommons.unmc.edu/surp2021/56","pdf_url":"https://digitalcommons.unmc.edu/cgi/viewcontent.cgi?article=1059&context=surp2021","source":{"id":"https://openalex.org/S7407097584","display_name":"DigitalCommons@UNMC","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I59130452","host_organization_name":"University of Nebraska Medical Center","host_organization_lineage":["https://openalex.org/I59130452"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Posters: 2021 Summer Undergraduate Research Program","raw_type":"text"},"volume":null,"type":"article","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://digitalcommons.unmc.edu/cgi/viewcontent.cgi?article=1059&context=surp2021","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060150926","display_name":"Grace A. Sullivan","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sullivan, Grace","raw_affiliation_strings":["University of Nebraska Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Nebraska Medical Center","institution_ids":["https://openalex.org/I59130452"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068586091","display_name":"Irine Khutsishvili","orcid":"https://orcid.org/0000-0001-5478-4136","observed_orcids":["https://orcid.org/0000-0001-5478-4136"]},"institutions":[{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Khutsishvili, Irine G.","raw_affiliation_strings":["University of Nebraska Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Nebraska Medical Center","institution_ids":["https://openalex.org/I59130452"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000240015","display_name":"Calliste Reiling","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Reiling, Calliste","raw_affiliation_strings":["University of Nebraska Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Nebraska Medical Center","institution_ids":["https://openalex.org/I59130452"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081378955","display_name":"Luis A. Marky","orcid":"https://orcid.org/0000-0001-5572-7707","observed_orcids":["https://orcid.org/0000-0001-5572-7707"]},"institutions":[{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marky, Luis","raw_affiliation_strings":["University of Nebraska Medical Center"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Nebraska Medical Center","institution_ids":["https://openalex.org/I59130452"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I59130452"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.0,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9854000210762024,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9854000210762024,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.012900000438094139,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13539","display_name":"thermodynamics and calorimetric analyses","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/preq1-riboswitch","display_name":"preQ1 riboswitch","score":0.8930000066757202},{"id":"https://openalex.org/keywords/dna-analogs","display_name":"DNA analogs","score":0.6700000166893005},{"id":"https://openalex.org/keywords/ligand-binding-affinity","display_name":"ligand binding affinity","score":0.7429999709129333},{"id":"https://openalex.org/keywords/hairpin-structure","display_name":"hairpin structure","score":0.6880000233650208},{"id":"https://openalex.org/keywords/pseudoknot","display_name":"pseudoknot","score":0.6380000114440918},{"id":"https://openalex.org/keywords/queuosine-biosynthesis","display_name":"queuosine biosynthesis","score":0.8299999833106995},{"id":"https://openalex.org/keywords/enthalpy-entropy-compensation","display_name":"enthalpy-entropy compensation","score":0.7730000019073486},{"id":"https://openalex.org/keywords/salt-effects","display_name":"salt effects","score":0.7570000290870667},{"id":"https://openalex.org/keywords/oligonucleotide-folding","display_name":"oligonucleotide folding","score":0.5249999761581421}],"concepts":[{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.6148069500923157},{"id":"https://openalex.org/C18762648","wikidata":"https://www.wikidata.org/wiki/Q42213","display_name":"Work (physics)","level":2,"score":0.4567585587501526},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4351039230823517},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.3120812773704529}],"mesh":[],"locations_count":1,"locations":[{"id":"pmh:oai:digitalcommons.unmc.edu:surp2021-1059","doi":null,"is_oa":true,"landing_page_url":"https://digitalcommons.unmc.edu/surp2021/56","pdf_url":"https://digitalcommons.unmc.edu/cgi/viewcontent.cgi?article=1059&context=surp2021","source":{"id":"https://openalex.org/S7407097584","display_name":"DigitalCommons@UNMC","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I59130452","host_organization_name":"University of Nebraska Medical Center","host_organization_lineage":["https://openalex.org/I59130452"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Posters: 2021 Summer Undergraduate Research Program","raw_type":"text"}],"best_oa_location":{"id":"pmh:oai:digitalcommons.unmc.edu:surp2021-1059","doi":null,"is_oa":true,"landing_page_url":"https://digitalcommons.unmc.edu/surp2021/56","pdf_url":"https://digitalcommons.unmc.edu/cgi/viewcontent.cgi?article=1059&context=surp2021","source":{"id":"https://openalex.org/S7407097584","display_name":"DigitalCommons@UNMC","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I59130452","host_organization_name":"University of Nebraska Medical Center","host_organization_lineage":["https://openalex.org/I59130452"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Posters: 2021 Summer Undergraduate Research Program","raw_type":"text"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G8982791346","display_name":"Sequence Specific Targeting of RNA Using Complementary Strands: Energetics, Kinetics and Hydration","funder_award_id":"1912587","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3194817831.pdf","grobid_xml":"https://content.openalex.org/works/W3194817831.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2767095064","https://openalex.org/W2023246179","https://openalex.org/W2088398087","https://openalex.org/W2161046183","https://openalex.org/W2159963690","https://openalex.org/W2063442684","https://openalex.org/W3033437360","https://openalex.org/W3214323805","https://openalex.org/W2043021994","https://openalex.org/W4380533246"],"abstract_inverted_index":{"The":[0,129,159],"PreQ1":[1,44],"riboswitch":[2],"is":[3,28,34],"a":[4,22,29,46,55,72,163],"subset":[5],"of":[6,20,41,57,71,107,120,126,140,146,154,165],"riboswitches":[7],"found":[8,36],"mainly":[9],"in":[10,17],"eubacteria.":[11],"It":[12],"plays":[13],"an":[14,141],"essential":[15],"role":[16],"the":[18,38,68,105,124,137],"biosynthesis":[19],"preQ1,":[21],"precursor":[23],"to":[24,51,66,99],"queuosine":[25],"(Q).":[26],"Q":[27],"hypermodified":[30],"guanine":[31],"nucleotide":[32],"that":[33],"universally":[35],"at":[37,80],"wobble":[39],"position":[40],"certain":[42],"tRNAs.":[43],"forms":[45],"pseudoknot":[47],"structure":[48],"upon":[49],"binding":[50,101],"preQ1.":[52],"We":[53],"use":[54,93],"combination":[56],"temperature-dependent":[58],"UV":[59],"spectroscopy":[60,97],"and":[61,76,87,95,149,156],"differential":[62],"scanning":[63],"calorimetry":[64],"(DSC)":[65],"determine":[67,100],"unfolding":[69,131],"thermodynamics":[70],"DNA":[73,112],"analog":[74],"(PREQ1)":[75],"its":[77],"control":[78],"hairpin":[79,127],"two":[81],"different":[82],"salt":[83],"concentrations,":[84],"16":[85],"mM":[86,89],"116":[88],"Na+.":[90],"Furthermore,":[91],"we":[92],"DSC":[94],"fluorescence":[96],"techniques":[98],"affinities,":[102],"Kb,":[103],"for":[104],"interaction":[106],"preq1":[108],"ligand":[109,160],"with":[110,117],"these":[111],"analogs.":[113],"Both":[114],"oligonucleotides":[115],"unfold":[116],"TMs":[118],"independent":[119],"strand":[121],"concentration,":[122],"indicating":[123],"formation":[125],"structures.":[128],"unfavorable":[130,142],"free":[132],"energy":[133],"terms":[134],"resulted":[135],"from":[136],"typical":[138],"compensation":[139],"enthalpy":[143],"contributions":[144,152],"(disruption":[145],"base-pair":[147],"stacks)":[148],"favorable":[150],"entropy":[151],"(release":[153],"ions":[155],"water":[157],"molecules).":[158],"preQ1":[161],"yielded":[162],"Kb":[164],"5.7":[166],"x":[167],"105.":[168],"Supported":[169],"by":[170],"NSF":[171],"Grant":[172],"(MCB-1912587).":[173]},"counts_by_year":[],"updated_date":"2026-10-26T11:51:55.731654","created_date":"2025-10-10T00:00:00"}