{"id":"https://openalex.org/W4295745362","doi":"https://doi.org/10.3390/biom12091290","title":"Building Protein Atomic Models from Cryo-EM Density Maps and Residue Co-Evolution","display_name":"Building Protein Atomic Models from Cryo-EM Density Maps and Residue Co-Evolution","publication_year":2022,"publication_date":"2022-09-13","ids":{"openalex":"https://openalex.org/W4295745362","doi":"https://doi.org/10.3390/biom12091290","pmid":"https://pubmed.ncbi.nlm.nih.gov/36139128","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/9496541"},"language":"en","primary_location":{"id":"doi:10.3390/biom12091290","doi":"https://doi.org/10.3390/biom12091290","is_oa":true,"landing_page_url":"https://doi.org/10.3390/biom12091290","pdf_url":"https://www.mdpi.com/2218-273X/12/9/1290/pdf?version=1663144171","source":{"id":"https://openalex.org/S4210236520","display_name":"Biomolecules","issn_l":"2218-273X","issn":["2218-273X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biomolecules","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2218-273X/12/9/1290/pdf?version=1663144171","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034682723","display_name":"Guillaume Bouvier","orcid":"https://orcid.org/0000-0003-2792-6084","observed_orcids":["https://orcid.org/0000-0003-2792-6084"]},"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/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387156267","display_name":"Biologie Mol\u00e9culaire Structurale et Processus Infectieux","ror":"https://ror.org/009b91528","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Guillaume Bouvier","raw_affiliation_strings":["Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]},{"raw_affiliation_string":"Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I204730241","https://openalex.org/I4387156267"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040815003","display_name":"Benjamin Bardiaux","orcid":"https://orcid.org/0000-0003-4014-9195","observed_orcids":["https://orcid.org/0000-0003-4014-9195"]},"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/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387156267","display_name":"Biologie Mol\u00e9culaire Structurale et Processus Infectieux","ror":"https://ror.org/009b91528","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Benjamin Bardiaux","raw_affiliation_strings":["Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]},{"raw_affiliation_string":"Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I204730241","https://openalex.org/I4387156267"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001802857","display_name":"Riccardo Pellarin","orcid":"https://orcid.org/0000-0002-1054-7400","observed_orcids":["https://orcid.org/0000-0002-1054-7400"]},"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/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387156267","display_name":"Biologie Mol\u00e9culaire Structurale et Processus Infectieux","ror":"https://ror.org/009b91528","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Riccardo Pellarin","raw_affiliation_strings":["Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]},{"raw_affiliation_string":"Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I204730241","https://openalex.org/I4387156267"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029796766","display_name":"Chiara Rapisarda","orcid":"https://orcid.org/0000-0002-1867-1385","observed_orcids":["https://orcid.org/0000-0002-1867-1385"]},"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/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210144489","display_name":"Institut Europ\u00e9en de Chimie et Biologie","ror":"https://ror.org/04agqs597","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I154526488","https://openalex.org/I4210128300","https://openalex.org/I4210144489"]},{"id":"https://openalex.org/I4387152319","display_name":"Laboratoire de Microbiologie Fondamentale et Pathog\u00e9nicit\u00e9","ror":"https://ror.org/03e4tg734","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4387152319"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Chiara Rapisarda","raw_affiliation_strings":["CNRS UMR 5234 Microbiologie Fondamentale et Pathog\u00e9nicit\u00e9, Bordeaux, France","Institut Europ\u00e9en de Chimie et Biologie, University of Bordeaux, Pessac, France","Institut Europ\u00e9en de Chimie et Biologie, University of Bordeaux, 33600 Pessac, France","Microbiologie Fondamentale et Pathog\u00e8nicit\u00e9, University of Bordeaux, CNRS UMR 5234, 33076 Bordeaux, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CNRS UMR 5234 Microbiologie Fondamentale et Pathog\u00e9nicit\u00e9, Bordeaux, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4387152319"]},{"raw_affiliation_string":"Institut Europ\u00e9en de Chimie et Biologie, University of Bordeaux, Pessac, France","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210144489"]},{"raw_affiliation_string":"Institut Europ\u00e9en de Chimie et Biologie, University of Bordeaux, 33600 Pessac, France","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210144489"]},{"raw_affiliation_string":"Microbiologie Fondamentale et Pathog\u00e8nicit\u00e9, University of Bordeaux, CNRS UMR 5234, 33076 Bordeaux, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4387152319"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024276029","display_name":"Micha\u00ebl Nilges","orcid":"https://orcid.org/0000-0002-1451-8092","observed_orcids":["https://orcid.org/0000-0002-1451-8092"]},"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/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387156267","display_name":"Biologie Mol\u00e9culaire Structurale et Processus Infectieux","ror":"https://ror.org/009b91528","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Michael Nilges","raw_affiliation_strings":["Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Structural Bioinformatics Unit, Department of Structural Biology and Chemistry; CNRS UMR 3528; C3BI, CNRS USR 3756; Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I4387156267"]},{"raw_affiliation_string":"Structural Bioinformatics Unit, Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR 3528, 75015 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I204730241","https://openalex.org/I4387156267"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5034682723"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I157536573","https://openalex.org/I204730241","https://openalex.org/I4387156267"],"apc_list":{"value":2100,"currency":"CHF","value_usd":2199},"apc_paid":{"value":2100,"currency":"CHF","value_usd":2199},"fwci":0.4088,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.58649094,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"12","issue":"9","first_page":"1290","last_page":"1290"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9818999767303467,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9818999767303467,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T10044","display_name":"Protein Structure and Dynamics","score":0.013399999588727951,"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/T11162","display_name":"Enzyme Structure and Function","score":0.003599999938160181,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/cryo-em-maps","display_name":"cryo-EM density maps","score":0.8679999709129333},{"id":"https://openalex.org/keywords/minimum-spanning-tree","display_name":"minimum spanning tree","score":0.968999981880188},{"id":"https://openalex.org/keywords/side-chain-density","display_name":"side chain density","score":0.8849999904632568},{"id":"https://openalex.org/keywords/contact-prediction","display_name":"contact prediction","score":0.7360000014305115},{"id":"https://openalex.org/keywords/de-novo-structure-determination","display_name":"de novo structure determination","score":0.628000020980835}],"concepts":[{"id":"https://openalex.org/C194778546","wikidata":"https://www.wikidata.org/wiki/Q15308119","display_name":"Atomic model","level":2,"score":0.5451182723045349},{"id":"https://openalex.org/C125485243","wikidata":"https://www.wikidata.org/wiki/Q905186","display_name":"Electron density","level":3,"score":0.49624425172805786},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.4363318681716919},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4361554980278015},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.412035197019577},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.37390151619911194},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3559926450252533},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35397082567214966},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.3354033827781677},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.27595746517181396},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.25900062918663025},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20463961362838745},{"id":"https://openalex.org/C147120987","wikidata":"https://www.wikidata.org/wiki/Q2225","display_name":"Electron","level":2,"score":0.1837734878063202},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.13801121711730957},{"id":"https://openalex.org/C184779094","wikidata":"https://www.wikidata.org/wiki/Q26383","display_name":"Atomic physics","level":1,"score":0.11329525709152222},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D020285","descriptor_name":"Cryoelectron Microscopy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D046911","descriptor_name":"Macromolecular Substances","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.3390/biom12091290","doi":"https://doi.org/10.3390/biom12091290","is_oa":true,"landing_page_url":"https://doi.org/10.3390/biom12091290","pdf_url":"https://www.mdpi.com/2218-273X/12/9/1290/pdf?version=1663144171","source":{"id":"https://openalex.org/S4210236520","display_name":"Biomolecules","issn_l":"2218-273X","issn":["2218-273X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biomolecules","raw_type":"journal-article"},{"id":"doi:10.1101/2020.01.03.893669","doi":"https://doi.org/10.1101/2020.01.03.893669","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2020.01.03.893669","pdf_url":null,"source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:pubmedcentral.nih.gov:9496541","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9496541","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biomolecules","raw_type":"Text"},{"id":"pmid:36139128","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36139128","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,"listed_in":[],"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":"Biomolecules","raw_type":"Journal Article"},{"id":"pmh:oai:HAL:pasteur-03063879v1","doi":null,"is_oa":true,"landing_page_url":"https://pasteur.hal.science/pasteur-03063879","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"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":"2020","raw_type":"info:eu-repo/semantics/preprint"},{"id":"pmh:oai:HAL:pasteur-03840876v1","doi":null,"is_oa":true,"landing_page_url":"https://pasteur.hal.science/pasteur-03840876","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"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":"Biomolecules, 2022, 12 (9), pp.1290. ⟨10.3390/biom12091290⟩","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:14bfebdcf90f4c94ad3bab9e2dcfca67","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/14bfebdcf90f4c94ad3bab9e2dcfca67","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,"listed_in":[],"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":"Biomolecules, Vol 12, Iss 9, p 1290 (2022)","raw_type":"article"},{"id":"pmh:oai:oskar-bordeaux.fr:20.500.12278/182105","doi":null,"is_oa":true,"landing_page_url":"https://oskar-bordeaux.fr/handle/20.500.12278/182105","pdf_url":null,"source":{"id":"https://openalex.org/S4306402569","display_name":"Oskar-Bordeaux (Universite de Bordeaux)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I15057530","host_organization_name":"Universit\u00e9 de Bordeaux","host_organization_lineage":["https://openalex.org/I15057530"],"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":"Article de revue"},{"id":"pmh:oai:oskar-bordeaux.fr:20.500.12278/182398","doi":null,"is_oa":true,"landing_page_url":"https://oskar-bordeaux.fr/handle/20.500.12278/182398","pdf_url":null,"source":{"id":"https://openalex.org/S4306402569","display_name":"Oskar-Bordeaux (Universite de Bordeaux)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I15057530","host_organization_name":"Universit\u00e9 de Bordeaux","host_organization_lineage":["https://openalex.org/I15057530"],"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":"","raw_type":"Document de travail - Pr\u00e9-publication"}],"best_oa_location":{"id":"doi:10.3390/biom12091290","doi":"https://doi.org/10.3390/biom12091290","is_oa":true,"landing_page_url":"https://doi.org/10.3390/biom12091290","pdf_url":"https://www.mdpi.com/2218-273X/12/9/1290/pdf?version=1663144171","source":{"id":"https://openalex.org/S4210236520","display_name":"Biomolecules","issn_l":"2218-273X","issn":["2218-273X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biomolecules","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G5196283127","display_name":"Institut Convergences pour l\u2019\u00e9tude de l\u2019Emergence des Pathologies au Travers des Individus et des populatiONs","funder_award_id":"ANR-16-CONV-0005","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"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4295745362.pdf","grobid_xml":"https://content.openalex.org/works/W4295745362.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W108891007","https://openalex.org/W163597489","https://openalex.org/W1543022217","https://openalex.org/W1607931568","https://openalex.org/W1890431460","https://openalex.org/W1965680834","https://openalex.org/W1969672293","https://openalex.org/W1980885982","https://openalex.org/W2008739377","https://openalex.org/W2013425283","https://openalex.org/W2032230424","https://openalex.org/W2051925784","https://openalex.org/W2064140868","https://openalex.org/W2084283552","https://openalex.org/W2086812659","https://openalex.org/W2098913646","https://openalex.org/W2104130324","https://openalex.org/W2124026197","https://openalex.org/W2143815085","https://openalex.org/W2275524693","https://openalex.org/W2300743858","https://openalex.org/W2517292445","https://openalex.org/W2574496196","https://openalex.org/W2611175157","https://openalex.org/W2765742208","https://openalex.org/W2802061004","https://openalex.org/W2883755802","https://openalex.org/W2896027119","https://openalex.org/W2897504342","https://openalex.org/W2904136130","https://openalex.org/W2949867299","https://openalex.org/W3093646295","https://openalex.org/W3114526705","https://openalex.org/W4210926296","https://openalex.org/W4285393885"],"related_works":["https://openalex.org/W2998475082","https://openalex.org/W2792756540","https://openalex.org/W1549620574","https://openalex.org/W4412696780","https://openalex.org/W2979414277","https://openalex.org/W6958833281","https://openalex.org/W7125505050","https://openalex.org/W2506310782","https://openalex.org/W2747777001","https://openalex.org/W7036029786"],"abstract_inverted_index":{"Electron":[0],"cryo-microscopy":[1],"(cryo-EM)":[2],"has":[3],"emerged":[4],"as":[5,128,168],"a":[6,40,57,70,104,129,169],"powerful":[7],"method":[8,106],"by":[9,53,162],"which":[10],"to":[11,107,205,208],"obtain":[12],"three-dimensional":[13],"(3D)":[14],"structures":[15],"of":[16,28,62,76,94,110,114,143,158,171],"macromolecular":[17],"complexes":[18],"at":[19,56],"atomic":[20,29,210],"or":[21,82],"near-atomic":[22,32],"resolution.":[23,59],"However,":[24],"de":[25],"novo":[26],"building":[27],"models":[30],"from":[31,183],"resolution":[33],"(3-5":[34],"\u00c5)":[35],"cryo-EM":[36],"density":[37,64,121,125,165],"maps":[38,65,179,196],"is":[39,79,126],"challenging":[41],"task,":[42],"in":[43],"particular":[44],"because":[45],"poorly":[46],"resolved":[47],"side-chain":[48,164],"densities":[49],"hamper":[50],"sequence":[51,184],"assignment":[52],"automatic":[54],"procedures":[55],"lower":[58],"Furthermore,":[60],"segmentation":[61],"EM":[63,120,124,178,195],"into":[66,118,197],"individual":[67,198],"subunits":[68,78,199],"remains":[69],"difficult":[71],"problem":[72],"when":[73,83,166],"the":[74,77,89,95,111,115,119,134,140,144,150,154,159],"structure":[75],"not":[80],"known,":[81],"significant":[84],"conformational":[85],"rearrangement":[86],"occurs":[87],"between":[88],"isolated":[90],"and":[91,152,200],"associated":[92],"form":[93],"subunits.":[96],"To":[97],"tackle":[98],"these":[99],"issues,":[100],"we":[101,187],"have":[102],"developed":[103],"graph-based":[105],"thread":[108],"most":[109,155],"C-\u03b1":[112,160,172],"trace":[113,173],"protein":[116],"backbone":[117,206],"map.":[122,145],"The":[123],"described":[127],"weighted":[130],"graph":[131],"such":[132],"that":[133,189],"resulting":[135],"minimum":[136],"spanning":[137],"tree":[138,151],"encompasses":[139],"high-density":[141],"regions":[142],"A":[146],"pruning":[147],"algorithm":[148],"cleans":[149],"finds":[153],"probable":[156],"positions":[157],"atoms,":[161],"using":[163],"available,":[167],"collection":[170],"fragments.":[174],"By":[175],"complementing":[176],"experimental":[177],"with":[180],"contact":[181],"predictions":[182],"co-evolutionary":[185],"information,":[186],"demonstrate":[188],"this":[190],"approach":[191],"can":[192],"correctly":[193],"segment":[194],"assign":[201],"amino":[202],"acid":[203],"sequences":[204],"traces":[207],"generate":[209],"models.":[211]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":2}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2022-09-15T00:00:00"}