{"id":"https://openalex.org/W2945219369","doi":"https://doi.org/10.1093/nar/gkz403","title":"DaReUS-Loop: a web server to model multiple loops in homology models","display_name":"DaReUS-Loop: a web server to model multiple loops in homology models","publication_year":2019,"publication_date":"2019-05-07","ids":{"openalex":"https://openalex.org/W2945219369","doi":"https://doi.org/10.1093/nar/gkz403","mag":"2945219369","pmid":"https://pubmed.ncbi.nlm.nih.gov/31114872"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkz403","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz403","pdf_url":"https://academic.oup.com/nar/article-pdf/47/W1/W423/28879641/gkz403.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/47/W1/W423/28879641/gkz403.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040990618","display_name":"Yasaman Karami","orcid":"https://orcid.org/0000-0001-8413-2665"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"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/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Yasaman Karami","raw_affiliation_strings":["Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","institution_ids":[]},{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074577875","display_name":"Julien Rey","orcid":"https://orcid.org/0000-0002-3050-511X"},"institutions":[{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"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"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Julien Rey","raw_affiliation_strings":["Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","institution_ids":[]},{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055433325","display_name":"Guillaume Postic","orcid":"https://orcid.org/0000-0002-0380-0092"},"institutions":[{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"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/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210138994","display_name":"Institut Fran\u00e7ais de Bioinformatique","ror":"https://ror.org/045f7pv37","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210138994"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Postic","raw_affiliation_strings":["Institut Fran\u00e7ais de Bioinformatique (IFB), UMS 3601-CNRS, Universit\u00e9 Paris-Saclay, Orsay, France","Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Institut Fran\u00e7ais de Bioinformatique (IFB), UMS 3601-CNRS, Universit\u00e9 Paris-Saclay, Orsay, France","institution_ids":["https://openalex.org/I4210138994","https://openalex.org/I277688954","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","institution_ids":[]},{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046855548","display_name":"Samuel Murail","orcid":"https://orcid.org/0000-0002-3842-5333"},"institutions":[{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"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/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Samuel Murail","raw_affiliation_strings":["Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002795410","display_name":"Pierre Tuff\u00e9ry","orcid":"https://orcid.org/0000-0003-1033-9895"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"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"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Pierre Tuff\u00e9ry","raw_affiliation_strings":["Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","institution_ids":[]},{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]},{"author_position":"last","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/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"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/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"funder","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Sjoerd J de\u00a0Vries","raw_affiliation_strings":["Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France"],"affiliations":[{"raw_affiliation_string":"Ressource Parisienne en Bioinformatique Structurale (RPBS), Paris, France","institution_ids":[]},{"raw_affiliation_string":"Sorbonne Paris Cit\u00e9, Universit\u00e9 Paris Diderot, CNRS UMR 8251, INSERM ERL U1133, Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I154526488"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5002795410","https://openalex.org/A5027261495"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I169173203","https://openalex.org/I204730241","https://openalex.org/I4210091437"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.0457,"has_fulltext":false,"cited_by_count":44,"citation_normalized_percentile":{"value":0.87397848,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"47","issue":"W1","first_page":"W423","last_page":"W428"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9973999857902527,"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":0.996999979019165,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6395649909973145},{"id":"https://openalex.org/keywords/homology-modeling","display_name":"Homology modeling","score":0.6339322328567505},{"id":"https://openalex.org/keywords/loop","display_name":"Loop (graph theory)","score":0.6327503323554993},{"id":"https://openalex.org/keywords/homology","display_name":"Homology (biology)","score":0.5669530034065247},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5612227916717529},{"id":"https://openalex.org/keywords/loop-modeling","display_name":"Loop modeling","score":0.5252872705459595},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49230754375457764},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.48489290475845337},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45076262950897217},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.45022058486938477},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4497145414352417},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3094172775745392},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.28202489018440247},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21694019436836243},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.169192373752594},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10959094762802124}],"concepts":[{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6395649909973145},{"id":"https://openalex.org/C169627665","wikidata":"https://www.wikidata.org/wiki/Q5767913","display_name":"Homology modeling","level":3,"score":0.6339322328567505},{"id":"https://openalex.org/C184670325","wikidata":"https://www.wikidata.org/wiki/Q512604","display_name":"Loop (graph theory)","level":2,"score":0.6327503323554993},{"id":"https://openalex.org/C165525559","wikidata":"https://www.wikidata.org/wiki/Q224180","display_name":"Homology (biology)","level":3,"score":0.5669530034065247},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5612227916717529},{"id":"https://openalex.org/C45475804","wikidata":"https://www.wikidata.org/wiki/Q6675846","display_name":"Loop modeling","level":4,"score":0.5252872705459595},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49230754375457764},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.48489290475845337},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45076262950897217},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.45022058486938477},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4497145414352417},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3094172775745392},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.28202489018440247},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21694019436836243},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.169192373752594},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10959094762802124},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkz403","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz403","pdf_url":"https://academic.oup.com/nar/article-pdf/47/W1/W423/28879641/gkz403.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:31114872","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31114872","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:HAL:hal-03201549v1","is_oa":true,"landing_page_url":"https://cnrs.hal.science/hal-03201549","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Research, 2019, 47 (W1), pp.423-428. &#x27E8;10.1093/nar/gkz403&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:europepmc.org:5577243","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6602439","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkz403","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz403","pdf_url":"https://academic.oup.com/nar/article-pdf/47/W1/W423/28879641/gkz403.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2945219369.pdf","grobid_xml":"https://content.openalex.org/works/W2945219369.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1932538671","https://openalex.org/W1970858396","https://openalex.org/W1978106273","https://openalex.org/W1979642339","https://openalex.org/W1980374511","https://openalex.org/W1982485870","https://openalex.org/W1988996356","https://openalex.org/W1998586260","https://openalex.org/W2002992883","https://openalex.org/W2005140643","https://openalex.org/W2007804411","https://openalex.org/W2021343666","https://openalex.org/W2037312364","https://openalex.org/W2039885142","https://openalex.org/W2040074453","https://openalex.org/W2042170152","https://openalex.org/W2044853688","https://openalex.org/W2045266215","https://openalex.org/W2046576421","https://openalex.org/W2047163848","https://openalex.org/W2051210555","https://openalex.org/W2085144661","https://openalex.org/W2097546936","https://openalex.org/W2103741674","https://openalex.org/W2114520383","https://openalex.org/W2130479394","https://openalex.org/W2131989561","https://openalex.org/W2139475477","https://openalex.org/W2144954642","https://openalex.org/W2146426769","https://openalex.org/W2150314147","https://openalex.org/W2167686614","https://openalex.org/W2317510423","https://openalex.org/W2338772837","https://openalex.org/W2345532267","https://openalex.org/W2385735394","https://openalex.org/W2565027487","https://openalex.org/W2574510864","https://openalex.org/W2598827021","https://openalex.org/W2605278857","https://openalex.org/W2610302091","https://openalex.org/W2806399642","https://openalex.org/W2891175468","https://openalex.org/W2897159829","https://openalex.org/W2909626341","https://openalex.org/W3198971594","https://openalex.org/W6636359891"],"related_works":["https://openalex.org/W3204091482","https://openalex.org/W2059079931","https://openalex.org/W2157930580","https://openalex.org/W10948732","https://openalex.org/W1978088031","https://openalex.org/W2161896699","https://openalex.org/W2575926788","https://openalex.org/W1543174845","https://openalex.org/W2043105781","https://openalex.org/W2039781075"],"abstract_inverted_index":{"Loop":[0],"regions":[1],"in":[2,15,78,103],"protein":[3,92],"structures":[4],"often":[5],"have":[6,49],"crucial":[7],"roles,":[8],"and":[9,17,34,99,133],"they":[10],"are":[11],"much":[12],"more":[13],"variable":[14],"sequence":[16],"structure":[18],"than":[19],"other":[20],"regions.":[21],"In":[22],"homology":[23,38,82],"modeling,":[24],"this":[25,46],"leads":[26],"to":[27,56,95,114],"larger":[28],"deviations":[29],"from":[30],"the":[31,52,79,86,115,119,123,126],"homologous":[32],"templates,":[33],"loop":[35,97],"modeling":[36,74,100],"of":[37,81,118,125],"models":[39],"remains":[40],"an":[41,70],"open":[42],"problem.":[43],"To":[44],"address":[45],"issue,":[47],"we":[48],"previously":[50],"developed":[51],"DaReUS-Loop":[53,64,121],"protocol,":[54],"leading":[55],"significant":[57],"improvement":[58],"over":[59],"existing":[60],"methods.":[61],"Here,":[62],"a":[63,91,108],"web":[65,88],"server":[66,89],"is":[67,85,134],"presented,":[68],"providing":[69],"automated":[71],"platform":[72],"for":[73],"or":[75],"remodeling":[76],"loops":[77],"context":[80],"models.":[83],"This":[84],"first":[87],"accepting":[90],"with":[93],"up":[94],"20":[96],"regions,":[98],"them":[101],"all":[102],"parallel.":[104],"It":[105],"also":[106],"provides":[107],"prediction":[109],"confidence":[110],"level":[111],"that":[112],"corresponds":[113],"expected":[116],"accuracy":[117],"loops.":[120],"facilitates":[122],"analysis":[124],"results":[127],"through":[128],"its":[129],"interactive":[130],"graphical":[131],"interface":[132],"freely":[135],"available":[136],"at":[137],"http://bioserv.rpbs.univ-paris-diderot.fr/services/DaReUS-Loop/.":[138]},"counts_by_year":[{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
