{"id":"https://openalex.org/W7162675204","doi":"https://doi.org/10.1186/s12859-026-06474-4","title":"DL3D: visual representation of conformational ensembles of domain-linker-domain proteins","display_name":"DL3D: visual representation of conformational ensembles of domain-linker-domain proteins","publication_year":2026,"publication_date":"2026-05-29","ids":{"openalex":"https://openalex.org/W7162675204","doi":"https://doi.org/10.1186/s12859-026-06474-4","pmid":"https://pubmed.ncbi.nlm.nih.gov/42210062"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-026-06474-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06474-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1186/s12859-026-06474-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5126784617","display_name":"Laure Carriere","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I190497903","display_name":"Laboratoire d'Analyse et d'Architecture des Syst\u00e8mes","ror":"https://ror.org/03vcm6439","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I190497903","https://openalex.org/I193033237","https://openalex.org/I196454796","https://openalex.org/I205747304","https://openalex.org/I4210095849","https://openalex.org/I4210152422","https://openalex.org/I4210159245","https://openalex.org/I4405258862","https://openalex.org/I4405259414"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Laure Carri\u00e8re","raw_affiliation_strings":["LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I190497903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086283956","display_name":"Simon Bartels","orcid":"https://orcid.org/0009-0000-9956-9616"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I190497903","display_name":"Laboratoire d'Analyse et d'Architecture des Syst\u00e8mes","ror":"https://ror.org/03vcm6439","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I190497903","https://openalex.org/I193033237","https://openalex.org/I196454796","https://openalex.org/I205747304","https://openalex.org/I4210095849","https://openalex.org/I4210152422","https://openalex.org/I4210159245","https://openalex.org/I4405258862","https://openalex.org/I4405259414"]},{"id":"https://openalex.org/I4210098964","display_name":"Toulouse Mathematics Institute","ror":null,"country_code":"FR","type":null,"lineage":["https://openalex.org/I4210098964"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Simon Bartels","raw_affiliation_strings":["Institut de Math\u00e9matiques de Toulouse, Universit\u00e9 de Toulouse, CNRS, Toulouse, France","LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut de Math\u00e9matiques de Toulouse, Universit\u00e9 de Toulouse, CNRS, Toulouse, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I4210098964"]},{"raw_affiliation_string":"LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I190497903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037708923","display_name":"Christophe Zanon","orcid":"https://orcid.org/0009-0004-5579-6680"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I190497903","display_name":"Laboratoire d'Analyse et d'Architecture des Syst\u00e8mes","ror":"https://ror.org/03vcm6439","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I190497903","https://openalex.org/I193033237","https://openalex.org/I196454796","https://openalex.org/I205747304","https://openalex.org/I4210095849","https://openalex.org/I4210152422","https://openalex.org/I4210159245","https://openalex.org/I4405258862","https://openalex.org/I4405259414"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Christophe Zanon","raw_affiliation_strings":["LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I190497903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5137289678","display_name":"Pau Bernad\u00f3","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4210100279","display_name":"Centre de Biologie Structurale","ror":"https://ror.org/0189yvq06","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I19894307","https://openalex.org/I4210100279"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Pau Bernad\u00f3","raw_affiliation_strings":["Centre de Biologie Structurale, Universit\u00e9 de Montpellier, INSERM and CNRS, Montpellier, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre de Biologie Structurale, Universit\u00e9 de Montpellier, INSERM and CNRS, Montpellier, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210100279"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5137256682","display_name":"Juan Cort\u00e9s","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I17866349","display_name":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse Midi-Pyr\u00e9n\u00e9es","ror":"https://ror.org/004raaa70","country_code":"FR","type":"education","lineage":["https://openalex.org/I17866349"]},{"id":"https://openalex.org/I190497903","display_name":"Laboratoire d'Analyse et d'Architecture des Syst\u00e8mes","ror":"https://ror.org/03vcm6439","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I190497903","https://openalex.org/I193033237","https://openalex.org/I196454796","https://openalex.org/I205747304","https://openalex.org/I4210095849","https://openalex.org/I4210152422","https://openalex.org/I4210159245","https://openalex.org/I4405258862","https://openalex.org/I4405259414"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Juan Cort\u00e9s","raw_affiliation_strings":["LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France. juan.cortes@laas.fr"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LAAS-CNRS, Universit\u00e9 de Toulouse, CNRS, Toulouse, France. juan.cortes@laas.fr","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I190497903"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5137256682"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I17866349","https://openalex.org/I190497903"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.47491021,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.38440001010894775,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.38440001010894775,"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":0.05660000070929527,"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"}},{"id":"https://openalex.org/T10923","display_name":"Force Microscopy Techniques and Applications","score":0.038100000470876694,"subfield":{"id":"https://openalex.org/subfields/3107","display_name":"Atomic and Molecular Physics, and Optics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/linker","display_name":"Linker","score":0.7544999718666077},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.498199999332428},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.46810001134872437},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.46630001068115234},{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.44850000739097595},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.43849998712539673},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.3982999920845032}],"concepts":[{"id":"https://openalex.org/C2780557392","wikidata":"https://www.wikidata.org/wiki/Q523796","display_name":"Linker","level":2,"score":0.7544999718666077},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6503000259399414},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.498199999332428},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.46810001134872437},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.46630001068115234},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.44850000739097595},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.43849998712539673},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3982999920845032},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.39239999651908875},{"id":"https://openalex.org/C16345878","wikidata":"https://www.wikidata.org/wiki/Q107472979","display_name":"Orientation (vector space)","level":2,"score":0.3571999967098236},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.31790000200271606},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.311599999666214},{"id":"https://openalex.org/C198082294","wikidata":"https://www.wikidata.org/wiki/Q3399648","display_name":"Position (finance)","level":2,"score":0.30559998750686646},{"id":"https://openalex.org/C54170458","wikidata":"https://www.wikidata.org/wiki/Q663554","display_name":"Voxel","level":2,"score":0.2946000099182129},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.27970001101493835},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.27880001068115234},{"id":"https://openalex.org/C69131567","wikidata":"https://www.wikidata.org/wiki/Q2068215","display_name":"Structural bioinformatics","level":3,"score":0.26910001039505005},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2581000030040741},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.2574999928474426},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.2551000118255615},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.25060001015663147}],"mesh":[{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-026-06474-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06474-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:42210062","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42210062","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13421738","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13421738/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13421738/pdf/12859_2026_Article_6474.pdf","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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:66b80fc2123440209a715be333c72520","is_oa":false,"landing_page_url":"https://doaj.org/article/66b80fc2123440209a715be333c72520","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 27, Iss 1 (2026)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-026-06474-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06474-4","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4336198650","display_name":"Computational Design of Intrinsically Disordered Proteins: Application to Flexible Linkers","funder_award_id":"ANR-22-CE45-0003","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320328356","display_name":"R\u00e9gion Occitanie Pyr\u00e9n\u00e9es-M\u00e9diterran\u00e9e","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1519946432","https://openalex.org/W1986347357","https://openalex.org/W2020719323","https://openalex.org/W2072654958","https://openalex.org/W2112600835","https://openalex.org/W2130581715","https://openalex.org/W2135412641","https://openalex.org/W2147988069","https://openalex.org/W2278873272","https://openalex.org/W2463977014","https://openalex.org/W2884206968","https://openalex.org/W2950835536","https://openalex.org/W3177828909","https://openalex.org/W3217216416","https://openalex.org/W4246449400","https://openalex.org/W4387204156","https://openalex.org/W4392397701","https://openalex.org/W4407513216","https://openalex.org/W4415273040"],"related_works":[],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1],"domain-linker-domain":[2],"(DLD)":[3],"architecture":[4],"is":[5,124,176,183,194],"commonly":[6],"found":[7],"in":[8,126],"proteins,":[9],"where":[10,122],"flexible":[11,153,161],"linkers":[12,24],"connect":[13],"consecutive":[14],"domains":[15,49,108,158],"and":[16,46,113,182],"regulate":[17],"their":[18,35,60],"relative":[19,44,103,142],"spatial":[20],"positioning.":[21],"Often,":[22],"these":[23],"present":[25,82],"partially":[26],"structured":[27],"elements":[28],"that":[29,76,88],"modulate":[30,56],"inter-domain":[31],"dynamics,":[32],"directly":[33],"influencing":[34],"function.":[36],"From":[37],"a":[38,69,84,118,179],"protein":[39],"design":[40],"perspective,":[41],"tuning":[42],"the":[43,51,73,93,102,106,110,130,139,148,165],"position":[45],"orientation":[47],"of":[48,65,92,105,141,151,156],"via":[50],"linker":[52,111],"offers":[53],"opportunities":[54],"to":[55,128],"biological":[57],"activity.":[58],"Despite":[59],"relevance,":[61],"analyzing":[62],"conformational":[63,94,173],"ensembles":[64],"DLD":[66,98],"proteins":[67,154],"remains":[68],"challenge,":[70],"thereby":[71],"limiting":[72],"structural":[74,149],"insights":[75],"can":[77],"be":[78],"extracted.":[79],"RESULTS:":[80],"We":[81],"DL3D,":[83],"robotics-inspired":[85],"visualization":[86],"tool":[87,166],"enables":[89],"intuitive":[90],"analysis":[91,140],"space":[95],"sampled":[96],"by":[97,160],"proteins.":[99],"DL3D":[100,146,175],"discretizes":[101],"positions":[104],"two":[107],"at":[109],"ends":[112],"projects":[114],"each":[115],"conformation":[116],"onto":[117],"3D":[119],"voxel":[120],"map,":[121],"density":[123],"represented":[125],"grayscale":[127],"highlight":[129],"most":[131],"probable":[132],"configurations.":[133],"In":[134],"addition,":[135],"quaternion-based":[136],"operations":[137],"allow":[138],"domain":[143],"orientations.":[144],"CONCLUSION:":[145],"facilitates":[147],"investigation":[150],"highly":[152],"composed":[155],"well-folded":[157],"connected":[159],"linkers.":[162],"Beyond":[163],"visualization,":[164],"supports":[167],"downstream":[168],"analyses":[169],"such":[170],"as":[171,178],"low-dimensional":[172],"clustering.":[174],"implemented":[177],"Python":[180],"package":[181],"available":[184],"at:":[185],"https://gitlab.laas.fr/moma/methods/analysis/dl3d/":[186],".":[187],"A":[188],"Jupyter":[189],"notebook":[190],"with":[191],"usage":[192],"examples":[193],"also":[195],"provided.":[196]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2026-05-29T00:00:00"}
