{"id":"https://openalex.org/W2276563171","doi":"https://doi.org/10.1371/journal.pcbi.1004697","title":"Binding Site Identification and Flexible Docking of Single Stranded RNA to Proteins Using a Fragment-Based Approach","display_name":"Binding Site Identification and Flexible Docking of Single Stranded RNA to Proteins Using a Fragment-Based Approach","publication_year":2016,"publication_date":"2016-01-27","ids":{"openalex":"https://openalex.org/W2276563171","doi":"https://doi.org/10.1371/journal.pcbi.1004697","mag":"2276563171","pmid":"https://pubmed.ncbi.nlm.nih.gov/26815409"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1004697","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004697","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004697&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004697&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067298493","display_name":"Isaure Chauvot de Beauch\u00eane","orcid":"https://orcid.org/0000-0002-7035-3042"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Isaure Chauvot de Beauchene","raw_affiliation_strings":["Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027261495","display_name":"Sjoerd J. de Vries","orcid":"https://orcid.org/0000-0002-7701-3454"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sjoerd J. de Vries","raw_affiliation_strings":["Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090330416","display_name":"Martin Zacharias","orcid":"https://orcid.org/0000-0001-5163-2663"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Martin Zacharias","raw_affiliation_strings":["Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Physik-Department T38, Technische Universit\u00e4t M\u00fcnchen, Garching, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"TUM - Technische Universit\u00e4t Munchen - Technical University Munich - Universit\u00e9 Technique de Munich (Arcisstrasse 21, D- 80333 M\u00fcnchen - Germany)","institution_ids":["https://openalex.org/I62916508"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5090330416"],"corresponding_institution_ids":["https://openalex.org/I62916508"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.0824,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.86595827,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"e1004697","last_page":"e1004697"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998000264167786,"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":0.9998000264167786,"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/T10725","display_name":"RNA Interference and Gene Delivery","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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.8081048130989075},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.7326209545135498},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5749057531356812},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.5088770389556885},{"id":"https://openalex.org/keywords/searching-the-conformational-space-for-docking","display_name":"Searching the conformational space for docking","score":0.48831483721733093},{"id":"https://openalex.org/keywords/nucleic-acid-structure","display_name":"Nucleic acid structure","score":0.47358280420303345},{"id":"https://openalex.org/keywords/fragment","display_name":"Fragment (logic)","score":0.44045257568359375},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37629538774490356},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.34569546580314636},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.24835878610610962},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.16176173090934753},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.14652222394943237},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08873549103736877}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.8081048130989075},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.7326209545135498},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5749057531356812},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.5088770389556885},{"id":"https://openalex.org/C44695244","wikidata":"https://www.wikidata.org/wiki/Q7441727","display_name":"Searching the conformational space for docking","level":3,"score":0.48831483721733093},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.47358280420303345},{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.44045257568359375},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37629538774490356},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34569546580314636},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.24835878610610962},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.16176173090934753},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.14652222394943237},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08873549103736877},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1004697","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004697","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004697&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:26815409","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26815409","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4729675","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4729675","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:HAL:hal-01505852v1","is_oa":false,"landing_page_url":"https://hal.science/hal-01505852","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2016, ⟨10.1371/journal.pcbi.1004697⟩","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:4a835b5f35cc443aa63a039f4b989b7e","is_oa":true,"landing_page_url":"https://doaj.org/article/4a835b5f35cc443aa63a039f4b989b7e","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 12, Iss 1, p e1004697 (2016)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/2633995","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Binding_Site_Identification_and_Flexible_Docking_of_Single_Stranded_RNA_to_Proteins_Using_a_Fragment_Based_Approach/2633995","pdf_url":null,"source":{"id":"https://openalex.org/S4306402621","display_name":"INDIGO (University of Illinois at Chicago)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I39422238","host_organization_name":"University of Illinois Chicago","host_organization_lineage":["https://openalex.org/I39422238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1004697","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004697","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004697&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2276563171.pdf","grobid_xml":"https://content.openalex.org/works/W2276563171.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1484294617","https://openalex.org/W1513606750","https://openalex.org/W1528632786","https://openalex.org/W1593880960","https://openalex.org/W1776762621","https://openalex.org/W1851718298","https://openalex.org/W1968245137","https://openalex.org/W1977504104","https://openalex.org/W1988409793","https://openalex.org/W1995164506","https://openalex.org/W2017838368","https://openalex.org/W2021273817","https://openalex.org/W2027403155","https://openalex.org/W2027486315","https://openalex.org/W2030303852","https://openalex.org/W2046788335","https://openalex.org/W2059947280","https://openalex.org/W2061493682","https://openalex.org/W2064660701","https://openalex.org/W2065837524","https://openalex.org/W2073911195","https://openalex.org/W2077871926","https://openalex.org/W2083717115","https://openalex.org/W2093404711","https://openalex.org/W2095157453","https://openalex.org/W2099224862","https://openalex.org/W2101497394","https://openalex.org/W2112103350","https://openalex.org/W2119931353","https://openalex.org/W2122161002","https://openalex.org/W2137167381","https://openalex.org/W2137309356","https://openalex.org/W2137453894","https://openalex.org/W2159817444","https://openalex.org/W2332335920","https://openalex.org/W6628997189"],"related_works":["https://openalex.org/W4235673852","https://openalex.org/W4213013656","https://openalex.org/W4246463539","https://openalex.org/W1971949659","https://openalex.org/W2037320233","https://openalex.org/W2023470556","https://openalex.org/W2479478139","https://openalex.org/W2612018465","https://openalex.org/W4213356174","https://openalex.org/W4245892713"],"abstract_inverted_index":{"Protein-RNA":[0],"docking":[1,39,110],"is":[2,82,174],"hampered":[3],"by":[4,84],"the":[5,20,34,52,55,58,61,68,73,95,118,135,139,158,175],"high":[6,187],"flexibility":[7],"of":[8,22,27,36,54,60,67,79,99,107,147,165],"RNA,":[9,62],"and":[10,57,104,130],"particularly":[11],"single-stranded":[12],"RNA":[13,69,74,87],"(ssRNA).":[14],"Yet,":[15],"ssRNA":[16,109,150,180],"regions":[17,32],"typically":[18],"carry":[19],"specificity":[21],"protein":[23,56,140],"recognition.":[24],"The":[25,76,121],"lack":[26],"methodology":[28],"for":[29,117,169],"modeling":[30],"such":[31],"limits":[33],"accuracy":[35],"current":[37],"protein-RNA":[38],"methods.":[40],"We":[41],"developed":[42],"a":[43,115,145,162,170,178],"fragment-based":[44,108,119],"approach":[45],"to":[46,133],"model":[47],"protein-bound":[48],"ssRNA,":[49],"based":[50],"on":[51,125,138],"structure":[53,146,160],"sequence":[59,185],"without":[63],"any":[64],"prior":[65],"knowledge":[66],"binding":[70,136],"site":[71,137],"or":[72],"structure.":[75],"conformational":[77],"diversity":[78],"each":[80,148],"fragment":[81,88],"sampled":[83],"an":[85],"exhaustive":[86],"library":[89],"that":[90],"was":[91,111,123,131],"created":[92],"from":[93,184],"all":[94],"existing":[96],"experimental":[97],"structures":[98],"protein-ssRNA":[100],"complexes.":[101],"A":[102],"systematic":[103],"detailed":[105],"analysis":[106],"performed":[112],"which":[113],"constitutes":[114],"proof-of-principle":[116],"approach.":[120],"method":[122],"tested":[124],"two":[126],"8-homo-nucleotide":[127],"ssRNA-protein":[128],"complexes":[129],"able":[132],"identify":[134],"within":[141],"10":[142],"\u00c5.":[143],"Moreover,":[144],"bound":[149,179],"could":[151,181],"be":[152,182],"generated":[153],"in":[154],"close":[155],"agreement":[156],"with":[157,161,186],"crystal":[159],"mean":[163],"deviation":[164],"~1.5":[166],"\u00c5":[167],"except":[168],"terminal":[171],"nucleotide.":[172],"This":[173],"first":[176],"time":[177],"modeled":[183],"precision.":[188]},"counts_by_year":[{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2016-06-24T00:00:00"}