{"id":"https://openalex.org/W4411545881","doi":"https://doi.org/10.1021/acs.jcim.5c00102","title":"Construction of PROTAC-Mediated Ternary Complex Structure Distribution Profiles Using Extensive Conformational Search","display_name":"Construction of PROTAC-Mediated Ternary Complex Structure Distribution Profiles Using Extensive Conformational Search","publication_year":2025,"publication_date":"2025-06-23","ids":{"openalex":"https://openalex.org/W4411545881","doi":"https://doi.org/10.1021/acs.jcim.5c00102","pmid":"https://pubmed.ncbi.nlm.nih.gov/40550492"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.5c00102","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00102","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.5c00102?ref=article_openPDF","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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","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":"hybrid","oa_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.5c00102?ref=article_openPDF","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008000523","display_name":"Genki Kudo","orcid":"https://orcid.org/0000-0002-4727-7002"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Genki Kudo","raw_affiliation_strings":["Physics Department, Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8571, Japan"],"raw_orcid":"https://orcid.org/0000-0002-4727-7002","affiliations":[{"raw_affiliation_string":"Physics Department, Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8571, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056724547","display_name":"Takumi Hirao","orcid":"https://orcid.org/0009-0006-4166-6150"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]},{"id":"https://openalex.org/I4210136259","display_name":"Comprehensive Cardiovascular","ror":"https://ror.org/038xhby63","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210136259"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Takumi Hirao","raw_affiliation_strings":["Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","Doctoral Program in Medical Sciences, Graduate School of Comprehensive Human Sciences","University of Tsukuba"],"raw_orcid":"https://orcid.org/0009-0006-4166-6150","affiliations":[{"raw_affiliation_string":"Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Doctoral Program in Medical Sciences, Graduate School of Comprehensive Human Sciences","institution_ids":["https://openalex.org/I4210136259"]},{"raw_affiliation_string":"University of Tsukuba","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034873036","display_name":"Ryuhei Harada","orcid":"https://orcid.org/0000-0001-7987-0540"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Ryuhei Harada","raw_affiliation_strings":["Center for Computational Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan"],"raw_orcid":"https://orcid.org/0000-0001-7987-0540","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048994262","display_name":"Yasuteru Shigeta","orcid":"https://orcid.org/0000-0002-3219-6007"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yasuteru Shigeta","raw_affiliation_strings":["Center for Computational Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan"],"raw_orcid":"https://orcid.org/0000-0002-3219-6007","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027918582","display_name":"Takatsugu Hirokawa","orcid":"https://orcid.org/0000-0002-3180-5050"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Takatsugu Hirokawa","raw_affiliation_strings":["Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","Transborder Medical Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan"],"raw_orcid":"https://orcid.org/0000-0002-3180-5050","affiliations":[{"raw_affiliation_string":"Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Transborder Medical Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085299607","display_name":"Ryunosuke Yoshino","orcid":"https://orcid.org/0000-0002-5123-1349"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Ryunosuke Yoshino","raw_affiliation_strings":["Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","Transborder Medical Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan"],"raw_orcid":"https://orcid.org/0000-0002-5123-1349","affiliations":[{"raw_affiliation_string":"Division of Biomedical Science, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Transborder Medical Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan","institution_ids":["https://openalex.org/I146399215"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5085299607"],"corresponding_institution_ids":["https://openalex.org/I146399215"],"apc_list":null,"apc_paid":null,"fwci":3.8943,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.93901433,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"65","issue":"13","first_page":"6939","last_page":"6948"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12534","display_name":"Protein Degradation and Inhibitors","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/T12534","display_name":"Protein Degradation and Inhibitors","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/T11041","display_name":"Ubiquitin and proteasome pathways","score":0.9921000003814697,"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/T12505","display_name":"Peptidase Inhibition and Analysis","score":0.9789000153541565,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ternary-operation","display_name":"Ternary operation","score":0.609855055809021},{"id":"https://openalex.org/keywords/distribution","display_name":"Distribution (mathematics)","score":0.5268341898918152},{"id":"https://openalex.org/keywords/ternary-complex","display_name":"Ternary complex","score":0.47638171911239624},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.42127466201782227},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3793705105781555},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3669711649417877},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2030198574066162},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12010905146598816},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.09304454922676086}],"concepts":[{"id":"https://openalex.org/C64452783","wikidata":"https://www.wikidata.org/wiki/Q1524945","display_name":"Ternary operation","level":2,"score":0.609855055809021},{"id":"https://openalex.org/C110121322","wikidata":"https://www.wikidata.org/wiki/Q865811","display_name":"Distribution (mathematics)","level":2,"score":0.5268341898918152},{"id":"https://openalex.org/C86756495","wikidata":"https://www.wikidata.org/wiki/Q7702931","display_name":"Ternary complex","level":3,"score":0.47638171911239624},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.42127466201782227},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3793705105781555},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3669711649417877},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2030198574066162},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12010905146598816},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.09304454922676086},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","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":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D054852","descriptor_name":"Small Molecule Libraries","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","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":"D059748","descriptor_name":"Proteolysis","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D059748","descriptor_name":"Proteolysis","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D059748","descriptor_name":"Proteolysis","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1021/acs.jcim.5c00102","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00102","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.5c00102?ref=article_openPDF","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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:40550492","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40550492","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:pubmedcentral.nih.gov:12264966","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12264966","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Chem Inf Model","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1021/acs.jcim.5c00102","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00102","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.5c00102?ref=article_openPDF","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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1709759425","display_name":null,"funder_award_id":"JPMXP1020230120","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"},{"id":"https://openalex.org/G2582532162","display_name":null,"funder_award_id":"JP23H04879","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G4509487576","display_name":null,"funder_award_id":"JP24ama121029j0003","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"},{"id":"https://openalex.org/G4694764363","display_name":null,"funder_award_id":"JP23K18033","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G5442299985","display_name":null,"funder_award_id":"JP23H02427","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G652903361","display_name":null,"funder_award_id":"JP23K16987","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320311405","display_name":"Japan Agency for Medical Research and Development","ror":"https://ror.org/004rtk039"},{"id":"https://openalex.org/F4320320912","display_name":"Ministry of Education, Culture, Sports, Science and Technology","ror":"https://ror.org/048rj2z13"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4411545881.pdf","grobid_xml":"https://content.openalex.org/works/W4411545881.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1762595738","https://openalex.org/W1976499671","https://openalex.org/W1999670894","https://openalex.org/W2016033647","https://openalex.org/W2034001167","https://openalex.org/W2035266068","https://openalex.org/W2052268618","https://openalex.org/W2056617023","https://openalex.org/W2057477511","https://openalex.org/W2065281489","https://openalex.org/W2083469632","https://openalex.org/W2103325328","https://openalex.org/W2128572087","https://openalex.org/W2147988069","https://openalex.org/W2147993766","https://openalex.org/W2151683271","https://openalex.org/W2171268876","https://openalex.org/W2178689284","https://openalex.org/W2179544325","https://openalex.org/W2226825552","https://openalex.org/W2404280981","https://openalex.org/W2516776474","https://openalex.org/W2597078857","https://openalex.org/W2623602792","https://openalex.org/W2743800043","https://openalex.org/W2767251210","https://openalex.org/W2769590617","https://openalex.org/W2801986983","https://openalex.org/W2803016273","https://openalex.org/W2883024539","https://openalex.org/W2901315612","https://openalex.org/W2912114516","https://openalex.org/W2913446986","https://openalex.org/W2914587883","https://openalex.org/W2989702634","https://openalex.org/W2996380129","https://openalex.org/W3044807330","https://openalex.org/W3088011183","https://openalex.org/W3088870471","https://openalex.org/W3093395956","https://openalex.org/W3100538750","https://openalex.org/W3103730625","https://openalex.org/W3107028140","https://openalex.org/W3130894852","https://openalex.org/W3202287440","https://openalex.org/W4205379795","https://openalex.org/W4302293700","https://openalex.org/W4304145060","https://openalex.org/W4307567162","https://openalex.org/W4313236875","https://openalex.org/W4360825536","https://openalex.org/W4361277745","https://openalex.org/W4379468407","https://openalex.org/W4379508797","https://openalex.org/W4390705036","https://openalex.org/W4401074349","https://openalex.org/W4403329684"],"related_works":["https://openalex.org/W4387497383","https://openalex.org/W2948807893","https://openalex.org/W2899084033","https://openalex.org/W2778153218","https://openalex.org/W2748952813","https://openalex.org/W1531601525","https://openalex.org/W2072179000","https://openalex.org/W2365603750","https://openalex.org/W3192101209","https://openalex.org/W2039354323"],"abstract_inverted_index":{"Proteolysis-targeting":[0],"chimeras":[1],"(PROTACs)":[2],"are":[3],"heterobifunctional":[4],"small":[5],"molecules":[6],"that":[7,70,89],"recruit":[8],"E3":[9],"ubiquitin":[10],"ligases":[11],"to":[12],"a":[13,22,75],"target":[14],"protein":[15],"and":[16,33,55,97],"induce":[17],"its":[18],"ubiquitination":[19],"by":[20],"forming":[21],"ternary":[23],"complex.":[24],"However,":[25],"the":[26,30,48],"structural":[27,81],"dynamics":[28,53],"underlying":[29],"complex":[31],"formation":[32],"degradation":[34,95],"efficiency":[35],"remain":[36],"unclear.":[37],"In":[38],"this":[39],"study,":[40],"we":[41],"attempted":[42],"an":[43],"extensive":[44],"conformational":[45,91],"search":[46],"using":[47],"parallel":[49],"cascade":[50],"selection":[51],"molecular":[52],"(PaCS-MD)":[54],"outlier":[56],"flooding":[57],"(OFLOOD)":[58],"method":[59],"for":[60],"PROTACs":[61,73],"differing":[62],"in":[63],"linker":[64],"length.":[65],"Markov":[66],"state":[67],"models":[68],"revealed":[69],"while":[71],"all":[72],"share":[74],"common":[76],"low":[77],"free-energy":[78],"state,":[79],"their":[80],"distribution":[82,92],"profiles":[83,93],"differ":[84],"significantly.":[85],"These":[86],"results":[87],"suggest":[88],"linker-dependent":[90],"modulate":[94],"activity":[96],"cooperativity,":[98],"offering":[99],"mechanistic":[100],"insights":[101],"into":[102],"rational":[103],"PROTAC":[104],"design.":[105]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-15T08:34:33.830935","created_date":"2025-10-10T00:00:00"}
