{"id":"https://openalex.org/W4399049435","doi":"https://doi.org/10.1021/acs.jcim.4c00420","title":"Similarities and Differences in Ligand Binding to Protein and RNA Targets: The Case of Riboflavin","display_name":"Similarities and Differences in Ligand Binding to Protein and RNA Targets: The Case of Riboflavin","publication_year":2024,"publication_date":"2024-05-27","ids":{"openalex":"https://openalex.org/W4399049435","doi":"https://doi.org/10.1021/acs.jcim.4c00420","pmid":"https://pubmed.ncbi.nlm.nih.gov/38800845"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.4c00420","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.4c00420","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://hdl.handle.net/11585/971803","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5084894495","display_name":"Stefano Bosio","orcid":"https://orcid.org/0000-0002-4886-0312"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Bosio","raw_affiliation_strings":["Computational and Chemical Biology, Fondazione Istituto Italiano di Tecnologia, Via Morego 30, I-16163 Genova, Italy","Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational and Chemical Biology, Fondazione Istituto Italiano di Tecnologia, Via Morego 30, I-16163 Genova, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082187932","display_name":"Mattia Bernetti","orcid":"https://orcid.org/0000-0002-4373-9310"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Mattia Bernetti","raw_affiliation_strings":["Computational and Chemical Biology, Fondazione Istituto Italiano di Tecnologia, Via Morego 30, I-16163 Genova, Italy","Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy"],"raw_orcid":"https://orcid.org/0000-0002-4373-9310","affiliations":[{"raw_affiliation_string":"Computational and Chemical Biology, Fondazione Istituto Italiano di Tecnologia, Via Morego 30, I-16163 Genova, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089704088","display_name":"Walter Rocchia","orcid":"https://orcid.org/0000-0003-2480-7151"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Walter Rocchia","raw_affiliation_strings":["Computational mOdelling of NanosCalE and bioPhysical sysTems (CONCEPT) Lab, Istituto Italiano di Tecnologia, Via Melen - 83, B Block, 16152 Genova, Italy"],"raw_orcid":"https://orcid.org/0000-0003-2480-7151","affiliations":[{"raw_affiliation_string":"Computational mOdelling of NanosCalE and bioPhysical sysTems (CONCEPT) Lab, Istituto Italiano di Tecnologia, Via Melen - 83, B Block, 16152 Genova, Italy","institution_ids":["https://openalex.org/I30771326"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038881721","display_name":"Matteo Masetti","orcid":"https://orcid.org/0000-0002-3757-7802"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Matteo Masetti","raw_affiliation_strings":["Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy"],"raw_orcid":"https://orcid.org/0000-0002-3757-7802","affiliations":[{"raw_affiliation_string":"Department of Pharmacy and Biotechnology, Alma Mater Studiorum \u2212 University of Bologna, Via Belmeloro 6, 40126 Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5082187932"],"corresponding_institution_ids":["https://openalex.org/I30771326","https://openalex.org/I9360294"],"apc_list":null,"apc_paid":null,"fwci":1.1133,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.76440956,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"64","issue":"11","first_page":"4570","last_page":"4586"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9997000098228455,"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":0.9997000098228455,"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/T11482","display_name":"RNA modifications and cancer","score":0.9988999962806702,"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/T10604","display_name":"RNA Research and Splicing","score":0.9977999925613403,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/riboflavin","display_name":"Riboflavin","score":0.5747626423835754},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.5671407580375671},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.5667036175727844},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5013749599456787},{"id":"https://openalex.org/keywords/rna-binding-protein","display_name":"RNA-binding protein","score":0.4941554367542267},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.3861156105995178},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3724195957183838},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2901713252067566},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.16975951194763184},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15333285927772522}],"concepts":[{"id":"https://openalex.org/C2776155809","wikidata":"https://www.wikidata.org/wiki/Q130365","display_name":"Riboflavin","level":2,"score":0.5747626423835754},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.5671407580375671},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.5667036175727844},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5013749599456787},{"id":"https://openalex.org/C41282012","wikidata":"https://www.wikidata.org/wiki/Q3928341","display_name":"RNA-binding protein","level":4,"score":0.4941554367542267},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3861156105995178},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3724195957183838},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2901713252067566},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.16975951194763184},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15333285927772522}],"mesh":[{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012256","descriptor_name":"Riboflavin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1021/acs.jcim.4c00420","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.4c00420","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:38800845","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38800845","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of chemical information and modeling","raw_type":null},{"id":"pmh:oai:cris.unibo.it:11585/971803","is_oa":true,"landing_page_url":"https://hdl.handle.net/11585/971803","pdf_url":null,"source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:ora.uniurb.it:11576/2746612","is_oa":false,"landing_page_url":"https://hdl.handle.net/11576/2746612","pdf_url":null,"source":{"id":"https://openalex.org/S4377196377","display_name":"CINECA IRIS Institutional Research information system (University of Urbino)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I190397597","host_organization_name":"University of Urbino","host_organization_lineage":["https://openalex.org/I190397597"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"pmh:oai:cris.unibo.it:11585/971803","is_oa":true,"landing_page_url":"https://hdl.handle.net/11585/971803","pdf_url":null,"source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","score":0.6600000262260437,"display_name":"Zero hunger"}],"awards":[{"id":"https://openalex.org/G4289299678","display_name":null,"funder_award_id":"CN00000041","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7090951942","display_name":null,"funder_award_id":"CUP J33C22001130001","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":111,"referenced_works":["https://openalex.org/W949812038","https://openalex.org/W1031578623","https://openalex.org/W1931081986","https://openalex.org/W1947810765","https://openalex.org/W1967869688","https://openalex.org/W1976161355","https://openalex.org/W1976192960","https://openalex.org/W1981021420","https://openalex.org/W1984690321","https://openalex.org/W1987327282","https://openalex.org/W1990724722","https://openalex.org/W1991667171","https://openalex.org/W1998735180","https://openalex.org/W2001996470","https://openalex.org/W2005339701","https://openalex.org/W2005764079","https://openalex.org/W2011301426","https://openalex.org/W2012566319","https://openalex.org/W2017150228","https://openalex.org/W2020288705","https://openalex.org/W2022597857","https://openalex.org/W2027423337","https://openalex.org/W2029667189","https://openalex.org/W2031168104","https://openalex.org/W2039127550","https://openalex.org/W2041882488","https://openalex.org/W2043389779","https://openalex.org/W2048639821","https://openalex.org/W2054135984","https://openalex.org/W2057664120","https://openalex.org/W2059484946","https://openalex.org/W2066690664","https://openalex.org/W2067329096","https://openalex.org/W2068205741","https://openalex.org/W2069982778","https://openalex.org/W2078216776","https://openalex.org/W2081046982","https://openalex.org/W2092915328","https://openalex.org/W2093224552","https://openalex.org/W2105349784","https://openalex.org/W2106383417","https://openalex.org/W2109839569","https://openalex.org/W2122576346","https://openalex.org/W2128572087","https://openalex.org/W2147988069","https://openalex.org/W2154670681","https://openalex.org/W2157970694","https://openalex.org/W2158076215","https://openalex.org/W2159859043","https://openalex.org/W2168137891","https://openalex.org/W2170711116","https://openalex.org/W2271736303","https://openalex.org/W2317863386","https://openalex.org/W2398356398","https://openalex.org/W2410522271","https://openalex.org/W2502698579","https://openalex.org/W2508330908","https://openalex.org/W2510475640","https://openalex.org/W2592524531","https://openalex.org/W2740980377","https://openalex.org/W2744078451","https://openalex.org/W2782369838","https://openalex.org/W2786495531","https://openalex.org/W2820941669","https://openalex.org/W2885305111","https://openalex.org/W2895155188","https://openalex.org/W2895994095","https://openalex.org/W2931878065","https://openalex.org/W2935525534","https://openalex.org/W2943588752","https://openalex.org/W2943749213","https://openalex.org/W2943941783","https://openalex.org/W2949078846","https://openalex.org/W2949983130","https://openalex.org/W2951804018","https://openalex.org/W2969604201","https://openalex.org/W2972491973","https://openalex.org/W2979630284","https://openalex.org/W2980358452","https://openalex.org/W2989052455","https://openalex.org/W3009690250","https://openalex.org/W3013781651","https://openalex.org/W3017832738","https://openalex.org/W3035076119","https://openalex.org/W3036717042","https://openalex.org/W3081273594","https://openalex.org/W3084513853","https://openalex.org/W3087060430","https://openalex.org/W3102022293","https://openalex.org/W3105643282","https://openalex.org/W3111162460","https://openalex.org/W3120898108","https://openalex.org/W3123805313","https://openalex.org/W3137008460","https://openalex.org/W3150635270","https://openalex.org/W3159156584","https://openalex.org/W3171835979","https://openalex.org/W3174373983","https://openalex.org/W4286721853","https://openalex.org/W4287509975","https://openalex.org/W4290672950","https://openalex.org/W4307033321","https://openalex.org/W4308736572","https://openalex.org/W4309012911","https://openalex.org/W4309670138","https://openalex.org/W4310703055","https://openalex.org/W4317859954","https://openalex.org/W4366819686","https://openalex.org/W4376604306","https://openalex.org/W4381309750","https://openalex.org/W4387440676"],"related_works":["https://openalex.org/W2315848562","https://openalex.org/W1665322839","https://openalex.org/W2044510317","https://openalex.org/W4229897137","https://openalex.org/W2381048841","https://openalex.org/W2029337404","https://openalex.org/W4379233576","https://openalex.org/W2753172052","https://openalex.org/W1935063092","https://openalex.org/W3080365360"],"abstract_inverted_index":{"It":[0],"is":[1,70],"nowadays":[2],"clear":[3],"that":[4,40],"RNA":[5,140,173],"molecules":[6,197],"can":[7,35],"play":[8],"active":[9],"roles":[10],"in":[11,94,102,175,200],"several":[12],"biological":[13],"processes.":[14],"As":[15,124],"a":[16,125,160,179],"result,":[17],"an":[18],"increasing":[19],"number":[20],"of":[21,67,86,104,108,131,172,188,195,217],"RNAs":[22,34,47],"are":[23,41,48],"gradually":[24],"being":[25],"identified":[26],"as":[27],"potentially":[28],"druggable":[29],"targets.":[30],"In":[31],"particular,":[32],"noncoding":[33],"adopt":[36],"highly":[37],"organized":[38],"conformations":[39],"suitable":[42],"for":[43,72],"drug":[44,74],"binding.":[45,177],"However,":[46],"still":[49],"considered":[50],"challenging":[51],"targets":[52],"due":[53,210],"to":[54,89,114,137,165,183,205,211],"their":[55],"complex":[56],"structural":[57],"dynamics":[58],"and":[59,100,118,121,139,147,158,215],"high":[60],"charge":[61],"density.":[62],"Thus,":[63],"elucidating":[64],"relevant":[65],"features":[66,85],"drug-RNA":[68],"binding":[69,88,115,130,185],"fundamental":[71],"advancing":[73],"discovery.":[75],"Here,":[76],"by":[77],"using":[78],"Molecular":[79],"Dynamics":[80],"simulations,":[81],"we":[82,97,128],"compare":[83],"key":[84],"ligand":[87,122,176],"proteins":[90],"with":[91],"those":[92],"observed":[93,199],"RNA.":[95],"Specifically,":[96],"explore":[98],"similarities":[99],"differences":[101],"terms":[103],"(i)":[105],"conformational":[106,162],"flexibility":[107,174],"the":[109,132,143,166,170,184,201,206,212,218],"target,":[110,168],"(ii)":[111],"electrostatic":[112,181],"contribution":[113,182],"free":[116,186],"energy,":[117],"(iii)":[119],"water":[120,196],"dynamics.":[123],"test":[126],"case,":[127],"examine":[129],"same":[133],"ligand,":[134],"namely":[135],"riboflavin,":[136],"protein":[138,167],"targets,":[141],"specifically":[142],"riboflavin":[144,189],"(RF)":[145],"kinase":[146],"flavin":[148],"mononucleotide":[149],"(FMN)":[150],"riboswitch.":[151],"The":[152],"FMN":[153,202],"riboswitch":[154,203],"exhibited":[155],"enhanced":[156],"fluctuations":[157],"explored":[159],"wider":[161],"space,":[163],"compared":[164,204],"underscoring":[169],"importance":[171],"Conversely,":[178],"similar":[180],"energy":[187],"was":[190,198],"found.":[191],"Finally,":[192],"greater":[193],"stability":[194],"RF":[207],"kinase,":[208],"possibly":[209],"different":[213],"shape":[214],"polarity":[216],"pockets.":[219]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
