{"id":"https://openalex.org/W1972434016","doi":"https://doi.org/10.1093/nar/gkn255","title":"PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation","display_name":"PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation","publication_year":2008,"publication_date":"2008-05-16","ids":{"openalex":"https://openalex.org/W1972434016","doi":"https://doi.org/10.1093/nar/gkn255","mag":"1972434016","pmid":"https://pubmed.ncbi.nlm.nih.gov/18483082"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkn255","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn255","pdf_url":"https://academic.oup.com/nar/article-pdf/36/suppl_2/W202/7626399/gkn255.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/36/suppl_2/W202/7626399/gkn255.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082654320","display_name":"Scott Montgomerie","orcid":null},"institutions":[{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"S. Montgomerie","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I40752897"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057901406","display_name":"J. A. Cruz","orcid":"https://orcid.org/0000-0002-4261-927X"},"institutions":[{"id":"https://openalex.org/I154425047","display_name":"University of Alberta","ror":"https://ror.org/0160cpw27","country_code":"CA","type":"education","lineage":["https://openalex.org/I154425047"]},{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"J. A. Cruz","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074814702","display_name":"S. Shrivastava","orcid":null},"institutions":[{"id":"https://openalex.org/I154425047","display_name":"University of Alberta","ror":"https://ror.org/0160cpw27","country_code":"CA","type":"education","lineage":["https://openalex.org/I154425047"]},{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"S. Shrivastava","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041046661","display_name":"D. Arndt","orcid":null},"institutions":[{"id":"https://openalex.org/I154425047","display_name":"University of Alberta","ror":"https://ror.org/0160cpw27","country_code":"CA","type":"education","lineage":["https://openalex.org/I154425047"]},{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"D. Arndt","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020947661","display_name":"Mark Berjanskii","orcid":null},"institutions":[{"id":"https://openalex.org/I154425047","display_name":"University of Alberta","ror":"https://ror.org/0160cpw27","country_code":"CA","type":"education","lineage":["https://openalex.org/I154425047"]},{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"M. Berjanskii","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003573061","display_name":"David S. Wishart","orcid":"https://orcid.org/0000-0002-3207-2434"},"institutions":[{"id":"https://openalex.org/I154425047","display_name":"University of Alberta","ror":"https://ror.org/0160cpw27","country_code":"CA","type":"education","lineage":["https://openalex.org/I154425047"]},{"id":"https://openalex.org/I40752897","display_name":"National Institute for Nanotechnology","ror":"https://ror.org/05c0g2426","country_code":"CA","type":"facility","lineage":["https://openalex.org/I40752897","https://openalex.org/I4210159778"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"D. S. Wishart","raw_affiliation_strings":["Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computing Science and Department of Biological Sciences, University of Alberta and 2 National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada T6G 2E8","institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5003573061"],"corresponding_institution_ids":["https://openalex.org/I154425047","https://openalex.org/I40752897"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.4692,"has_fulltext":true,"cited_by_count":116,"citation_normalized_percentile":{"value":0.88836255,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"36","issue":"Web Server","first_page":"W202","last_page":"W209"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","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/T12254","display_name":"Machine Learning in Bioinformatics","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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991999864578247,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9986000061035156,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-secondary-structure","display_name":"Protein secondary structure","score":0.7704156637191772},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6131865382194519},{"id":"https://openalex.org/keywords/threading","display_name":"Threading (protein sequence)","score":0.607850968837738},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6039683222770691},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5636571049690247},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5508579611778259},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.5421013236045837},{"id":"https://openalex.org/keywords/protein-structure-database","display_name":"Protein structure database","score":0.510688841342926},{"id":"https://openalex.org/keywords/homology-modeling","display_name":"Homology modeling","score":0.5105704069137573},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49133744835853577},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.46961671113967896},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.4669552743434906},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.46578091382980347},{"id":"https://openalex.org/keywords/protein-tertiary-structure","display_name":"Protein tertiary structure","score":0.453643798828125},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.4189009666442871},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41200006008148193},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.39040276408195496},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.3342222273349762},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.3267875909805298},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21878251433372498},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.12387147545814514}],"concepts":[{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.7704156637191772},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6131865382194519},{"id":"https://openalex.org/C200307862","wikidata":"https://www.wikidata.org/wiki/Q7797175","display_name":"Threading (protein sequence)","level":3,"score":0.607850968837738},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6039683222770691},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5636571049690247},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5508579611778259},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.5421013236045837},{"id":"https://openalex.org/C136475424","wikidata":"https://www.wikidata.org/wiki/Q7251500","display_name":"Protein structure database","level":4,"score":0.510688841342926},{"id":"https://openalex.org/C169627665","wikidata":"https://www.wikidata.org/wiki/Q5767913","display_name":"Homology modeling","level":3,"score":0.5105704069137573},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49133744835853577},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.46961671113967896},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.4669552743434906},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.46578091382980347},{"id":"https://openalex.org/C75599170","wikidata":"https://www.wikidata.org/wiki/Q898483","display_name":"Protein tertiary structure","level":2,"score":0.453643798828125},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4189009666442871},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41200006008148193},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.39040276408195496},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.3342222273349762},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.3267875909805298},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21878251433372498},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.12387147545814514},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","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/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"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":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","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":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","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":3,"locations":[{"id":"doi:10.1093/nar/gkn255","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn255","pdf_url":"https://academic.oup.com/nar/article-pdf/36/suppl_2/W202/7626399/gkn255.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:18483082","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18483082","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:pubmedcentral.nih.gov:2447806","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2447806","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkn255","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn255","pdf_url":"https://academic.oup.com/nar/article-pdf/36/suppl_2/W202/7626399/gkn255.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320326646","display_name":"Genome Alberta","ror":null},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"},{"id":"https://openalex.org/F4320337169","display_name":"Alberta Prion Research Institute","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1972434016.pdf","grobid_xml":"https://content.openalex.org/works/W1972434016.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1513002528","https://openalex.org/W1606410455","https://openalex.org/W1967974247","https://openalex.org/W1988496202","https://openalex.org/W2025996793","https://openalex.org/W2027663250","https://openalex.org/W2046192291","https://openalex.org/W2060809301","https://openalex.org/W2063608300","https://openalex.org/W2067484689","https://openalex.org/W2080948893","https://openalex.org/W2083334314","https://openalex.org/W2102585773","https://openalex.org/W2109261827","https://openalex.org/W2110863368","https://openalex.org/W2118831220","https://openalex.org/W2136766277","https://openalex.org/W2137095432","https://openalex.org/W2137259082","https://openalex.org/W2139582206","https://openalex.org/W2141915739","https://openalex.org/W2149480059","https://openalex.org/W2152770371","https://openalex.org/W2153100136","https://openalex.org/W2153187042","https://openalex.org/W2153717161","https://openalex.org/W2156389165","https://openalex.org/W2159136327","https://openalex.org/W2161746138","https://openalex.org/W2163017458","https://openalex.org/W2167708455"],"related_works":["https://openalex.org/W646353556","https://openalex.org/W2802527233","https://openalex.org/W2114568928","https://openalex.org/W2371908581","https://openalex.org/W2052981282","https://openalex.org/W2136856901","https://openalex.org/W4386783600","https://openalex.org/W2246807311","https://openalex.org/W2123053169","https://openalex.org/W2221737924"],"abstract_inverted_index":{"PROTEUS2":[0,15,49,160,170],"is":[1,102,181],"a":[2,74,79,183],"web":[3],"server":[4,171],"designed":[5],"to":[6,104],"support":[7],"comprehensive":[8],"protein":[9],"structure":[10,38,61,71,99,128],"prediction":[11,62,76,161],"and":[12,30,66,93,126,151],"structure-based":[13,85],"annotation.":[14],"accepts":[16],"either":[17],"single":[18,75],"sequences":[19,25],"(for":[20,26,63],"directed":[21],"studies)":[22],"or":[23,47],"multiple":[24],"whole":[27],"proteome":[28],"annotation)":[29],"predicts":[31],"the":[32,40,107],"secondary":[33,60,98,127],"and,":[34],"if":[35],"possible,":[36],"tertiary":[37],"of":[39,81,96,111,131,178],"query":[41,167],"protein(s).":[42],"Unlike":[43],"most":[44],"other":[45],"tools":[46],"servers,":[48],"bundles":[50],"signal":[51,115],"peptide":[52],"identification,":[53],"transmembrane":[54,57],"helix":[55],"prediction,":[56,59],"beta-strand":[58],"soluble":[64],"proteins)":[65],"homology":[67,134],"modeling":[68,135],"(i.e.":[69],"3D":[70,141,152],"generation)":[72],"into":[73],"pipeline.":[77],"Using":[78],"combination":[80],"progressive":[82],"multi-sequence":[83],"alignment,":[84],"mapping,":[86],"hidden":[87],"Markov":[88],"models,":[89],"multi-component":[90],"neural":[91],"nets":[92],"up-to-date":[94],"databases":[95],"known":[97],"assignments,":[100],"PROTEUS":[101],"able":[103],"achieve":[105],"among":[106],"highest":[108],"reported":[109],"levels":[110],"predictive":[112],"accuracy":[113],"for":[114,176],"peptides":[116],"(Q2":[117,123],"=":[118,124],"94%),":[119],"membrane":[120],"spanning":[121],"helices":[122],"87%)":[125],"(Q3":[129],"score":[130],"81.3%).":[132],"PROTEUS2's":[133],"services":[136],"also":[137],"provide":[138],"high":[139],"quality":[140],"models":[142],"that":[143],"compare":[144],"favorably":[145],"with":[146,173],"those":[147],"generated":[148],"by":[149],"SWISS-MODEL":[150],"JigSaw":[153],"(within":[154],"0.2":[155],"A":[156],"RMSD).":[157],"The":[158,169],"average":[159],"takes":[162],"approximately":[163],"3":[164],"min":[165],"per":[166],"sequence.":[168],"along":[172],"source":[174],"code":[175],"many":[177],"its":[179],"modules":[180],"accessible":[182],"http://wishart.biology.ualberta.ca/proteus2.":[184]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":8}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
