{"id":"https://openalex.org/W2103305337","doi":"https://doi.org/10.1093/nar/gks1103","title":"UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation","display_name":"UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation","publication_year":2012,"publication_date":"2012-11-19","ids":{"openalex":"https://openalex.org/W2103305337","doi":"https://doi.org/10.1093/nar/gks1103","mag":"2103305337","pmid":"https://pubmed.ncbi.nlm.nih.gov/23172288"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gks1103","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1103","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D445/18787145/gks1103.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":null,"license_id":null,"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/41/D1/D445/18787145/gks1103.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024755000","display_name":"Tianshun Gao","orcid":"https://orcid.org/0000-0002-0466-9081"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Tianshun Gao","raw_affiliation_strings":["Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Luoyu Road 1037, Wuhan, Hubei 430074, China"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, Luoyu Road 1037, Wuhan, Hubei 430074, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027890976","display_name":"Zexian Liu","orcid":"https://orcid.org/0000-0001-9698-0610"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zexian Liu","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100616760","display_name":"Yongbo Wang","orcid":"https://orcid.org/0000-0002-3388-1663"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongbo Wang","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083819240","display_name":"Han Cheng","orcid":"https://orcid.org/0000-0002-6684-317X"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Han Cheng","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100763828","display_name":"Qing Yang","orcid":"https://orcid.org/0000-0002-2048-4087"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qing Yang","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009558607","display_name":"An\u2010Yuan Guo","orcid":"https://orcid.org/0000-0002-5099-7465"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Anyuan Guo","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079092787","display_name":"Jian Ren","orcid":"https://orcid.org/0000-0002-4161-1292"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jian Ren","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052691524","display_name":"Yu Xue","orcid":"https://orcid.org/0000-0002-9403-6869"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu Xue","raw_affiliation_strings":["University of Science and Technology of China, Hefei, China"],"affiliations":[{"raw_affiliation_string":"University of Science and Technology of China, Hefei, China","institution_ids":["https://openalex.org/I126520041"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5024755000"],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.4202,"has_fulltext":false,"cited_by_count":108,"citation_normalized_percentile":{"value":0.89213432,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"41","issue":"D1","first_page":"D445","last_page":"D451"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11041","display_name":"Ubiquitin and proteasome pathways","score":1.0,"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/T11041","display_name":"Ubiquitin and proteasome pathways","score":1.0,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9939000010490417,"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/T10583","display_name":"Cancer-related Molecular Pathways","score":0.9850999712944031,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ubiquitin","display_name":"Ubiquitin","score":0.8687335252761841},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7784924507141113},{"id":"https://openalex.org/keywords/ubiquitin-ligase","display_name":"Ubiquitin ligase","score":0.7666870951652527},{"id":"https://openalex.org/keywords/deubiquitinating-enzyme","display_name":"Deubiquitinating enzyme","score":0.5977062582969666},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.49158939719200134},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49135318398475647},{"id":"https://openalex.org/keywords/ubiquitin-protein-ligases","display_name":"Ubiquitin-Protein Ligases","score":0.4865473806858063},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.4522169828414917},{"id":"https://openalex.org/keywords/ubiquitins","display_name":"Ubiquitins","score":0.4493817985057831},{"id":"https://openalex.org/keywords/dna-ligase","display_name":"DNA ligase","score":0.4476916193962097},{"id":"https://openalex.org/keywords/perl","display_name":"Perl","score":0.4285426139831543},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.33864420652389526},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3373964726924896},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.32688701152801514},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.19609001278877258},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.16675513982772827},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13123607635498047}],"concepts":[{"id":"https://openalex.org/C25602115","wikidata":"https://www.wikidata.org/wiki/Q407111","display_name":"Ubiquitin","level":3,"score":0.8687335252761841},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7784924507141113},{"id":"https://openalex.org/C134459356","wikidata":"https://www.wikidata.org/wiki/Q4274835","display_name":"Ubiquitin ligase","level":4,"score":0.7666870951652527},{"id":"https://openalex.org/C102658986","wikidata":"https://www.wikidata.org/wiki/Q5266092","display_name":"Deubiquitinating enzyme","level":4,"score":0.5977062582969666},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.49158939719200134},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49135318398475647},{"id":"https://openalex.org/C2908868211","wikidata":"https://www.wikidata.org/wiki/Q4274835","display_name":"Ubiquitin-Protein Ligases","level":5,"score":0.4865473806858063},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.4522169828414917},{"id":"https://openalex.org/C2911199164","wikidata":"https://www.wikidata.org/wiki/Q407111","display_name":"Ubiquitins","level":5,"score":0.4493817985057831},{"id":"https://openalex.org/C175114707","wikidata":"https://www.wikidata.org/wiki/Q408483","display_name":"DNA ligase","level":3,"score":0.4476916193962097},{"id":"https://openalex.org/C2777002779","wikidata":"https://www.wikidata.org/wiki/Q42478","display_name":"Perl","level":2,"score":0.4285426139831543},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.33864420652389526},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3373964726924896},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32688701152801514},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.19609001278877258},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.16675513982772827},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13123607635498047}],"mesh":[{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010450","descriptor_name":"Endopeptidases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014452","descriptor_name":"Ubiquitins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014452","descriptor_name":"Ubiquitins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014452","descriptor_name":"Ubiquitins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025801","descriptor_name":"Ubiquitin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D025801","descriptor_name":"Ubiquitin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D025801","descriptor_name":"Ubiquitin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044763","descriptor_name":"Ubiquitin-Conjugating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044764","descriptor_name":"Ubiquitin-Activating Enzymes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D044767","descriptor_name":"Ubiquitin-Protein Ligases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054875","descriptor_name":"Ubiquitination","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gks1103","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1103","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D445/18787145/gks1103.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:23172288","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23172288","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:CiteSeerX.psu:10.1.1.879.2498","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.879.2498","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/41/D1/D445.full.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:2590248","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3531133","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gks1103","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1103","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D445/18787145/gks1103.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":null,"license_id":null,"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":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2103305337.pdf","grobid_xml":"https://content.openalex.org/works/W2103305337.grobid-xml"},"referenced_works_count":43,"referenced_works":["https://openalex.org/W1497941038","https://openalex.org/W1762734860","https://openalex.org/W1969713295","https://openalex.org/W1979250970","https://openalex.org/W1986040594","https://openalex.org/W1988031203","https://openalex.org/W1990453950","https://openalex.org/W1991841644","https://openalex.org/W1993550226","https://openalex.org/W1996015633","https://openalex.org/W1999353132","https://openalex.org/W2005175785","https://openalex.org/W2013057562","https://openalex.org/W2034941135","https://openalex.org/W2036492240","https://openalex.org/W2052002049","https://openalex.org/W2055390996","https://openalex.org/W2062510288","https://openalex.org/W2071191421","https://openalex.org/W2077494922","https://openalex.org/W2078856281","https://openalex.org/W2079428226","https://openalex.org/W2088724822","https://openalex.org/W2107644675","https://openalex.org/W2116398954","https://openalex.org/W2132926880","https://openalex.org/W2135278768","https://openalex.org/W2140158862","https://openalex.org/W2141885858","https://openalex.org/W2143538182","https://openalex.org/W2144114582","https://openalex.org/W2146341019","https://openalex.org/W2149368193","https://openalex.org/W2149931676","https://openalex.org/W2151831732","https://openalex.org/W2162223351","https://openalex.org/W2165902959","https://openalex.org/W2168591052","https://openalex.org/W2171681733","https://openalex.org/W4210347168","https://openalex.org/W4232154957","https://openalex.org/W4233334497","https://openalex.org/W4320301318"],"related_works":["https://openalex.org/W2163581448","https://openalex.org/W1838789028","https://openalex.org/W2514895402","https://openalex.org/W2949292493","https://openalex.org/W2277539891","https://openalex.org/W4387108198","https://openalex.org/W2996764328","https://openalex.org/W2544137849","https://openalex.org/W2064643097","https://openalex.org/W2766077117"],"abstract_inverted_index":{"In":[0],"this":[1],"work,":[2],"we":[3,95],"developed":[4,137],"a":[5,28,34],"family-based":[6],"database":[7,135],"of":[8,19,30,149,164],"UUCD":[9,134,165],"(http://uucd.biocuckoo.org)":[10],"for":[11,26,107,124],"ubiquitin":[12],"and":[13,71,78,84,100,111,126,146,156],"ubiquitin-like":[14],"conjugation,":[15],"which":[16],"is":[17,57],"one":[18],"the":[20,62,114,119,133],"most":[21],"important":[22],"post-translational":[23],"modifications":[24],"responsible":[25],"regulating":[27],"variety":[29],"cellular":[31],"processes,":[32],"through":[33],"similar":[35],"E1":[36],"(ubiquitin-activating":[37],"enzyme)-E2":[38],"(ubiquitin-conjugating":[39],"enzyme)-E3":[40],"(ubiquitin-protein":[41],"ligase)":[42],"enzyme":[43],"thioester":[44],"cascade.":[45],"Although":[46],"extensive":[47],"experimental":[48],"efforts":[49],"have":[50],"been":[51],"taken,":[52],"an":[53],"integrative":[54],"data":[55],"resource":[56],"still":[58],"not":[59],"available.":[60],"From":[61],"scientific":[63],"literature,":[64],"26":[65],"E1s,":[66,108,140],"105":[67],"E2s,":[68,109,142],"1003":[69],"E3s":[70,110,145],"148":[72],"deubiquitination":[73],"enzymes":[74,92],"(DUBs)":[75],"were":[76,122,158],"collected":[77],"classified":[79],"into":[80],"1,":[81,97,98],"3,":[82],"19":[83],"7":[85],"families,":[86],"respectively.":[87],"To":[88],"computationally":[89],"characterize":[90],"potential":[91],"in":[93,168],"eukaryotes,":[94],"constructed":[96],"15":[99],"6":[101],"hidden":[102],"Markov":[103],"model":[104],"(HMM)":[105],"profiles":[106],"DUBs":[112,148],"at":[113],"family":[115],"level,":[116],"separately.":[117],"Moreover,":[118],"ortholog":[120],"searches":[121],"conducted":[123],"E3":[125],"DUB":[127],"families":[128],"without":[129],"HMM":[130],"profiles.":[131],"Then":[132],"was":[136,166],"with":[138],"738":[139],"2937":[141],"46":[143],"631":[144],"6647":[147],"70":[150],"eukaryotic":[151],"species.":[152],"The":[153,161],"detailed":[154],"annotations":[155],"classifications":[157],"also":[159],"provided.":[160],"online":[162],"service":[163],"implemented":[167],"PHP":[169],"+":[170,172,174],"MySQL":[171],"JavaScript":[173],"Perl.":[175]},"counts_by_year":[{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":10},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":5}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
