{"id":"https://openalex.org/W2033780266","doi":"https://doi.org/10.1093/nar/gkm304","title":"pKNOT: the protein KNOT web server","display_name":"pKNOT: the protein KNOT web server","publication_year":2007,"publication_date":"2007-05-08","ids":{"openalex":"https://openalex.org/W2033780266","doi":"https://doi.org/10.1093/nar/gkm304","mag":"2033780266","pmid":"https://pubmed.ncbi.nlm.nih.gov/17526524"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkm304","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm304","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W420/9584670/gkm304.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/35/suppl_2/W420/9584670/gkm304.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041853428","display_name":"Yuen\u2010Liang Lai","orcid":"https://orcid.org/0000-0002-0295-6255"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Y.-L. Lai","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111752614","display_name":"S.C. Yen","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"S.-C. Yen","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055059212","display_name":"Sung\u2010Huan Yu","orcid":"https://orcid.org/0000-0001-7955-8645"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"S.-H. Yu","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111863543","display_name":"J.-K. Hwang","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"J.-K. Hwang","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan and 2Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5111863543"],"corresponding_institution_ids":["https://openalex.org/I148366613"],"apc_list":{"value":3992,"currency":"USD","value_usd":3992},"apc_paid":{"value":3992,"currency":"USD","value_usd":3992},"fwci":1.0069,"has_fulltext":true,"cited_by_count":40,"citation_normalized_percentile":{"value":0.73700725,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"35","issue":"Web Server","first_page":"W420","last_page":"W424"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9930999875068665,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.9930999875068665,"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/T11041","display_name":"Ubiquitin and proteasome pathways","score":0.9490000009536743,"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/T11617","display_name":"Enzyme Production and Characterization","score":0.9420999884605408,"subfield":{"id":"https://openalex.org/subfields/1305","display_name":"Biotechnology"},"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-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.7755600214004517},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.7201471328735352},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.668261706829071},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.6440863013267517},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6063962578773499},{"id":"https://openalex.org/keywords/web-page","display_name":"Web page","score":0.4631224572658539},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44783830642700195},{"id":"https://openalex.org/keywords/java-applet","display_name":"Java applet","score":0.41543838381767273},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.39027953147888184},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.36146295070648193},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3339619040489197},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3145006597042084},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.19540360569953918},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.18649840354919434},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12977996468544006}],"concepts":[{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.7755600214004517},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.7201471328735352},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.668261706829071},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.6440863013267517},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6063962578773499},{"id":"https://openalex.org/C21959979","wikidata":"https://www.wikidata.org/wiki/Q36774","display_name":"Web page","level":2,"score":0.4631224572658539},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44783830642700195},{"id":"https://openalex.org/C15524039","wikidata":"https://www.wikidata.org/wiki/Q865817","display_name":"Java applet","level":3,"score":0.41543838381767273},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.39027953147888184},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.36146295070648193},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3339619040489197},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3145006597042084},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.19540360569953918},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.18649840354919434},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12977996468544006}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010834","descriptor_name":"Phytochrome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010834","descriptor_name":"Phytochrome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010834","descriptor_name":"Phytochrome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkm304","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm304","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W420/9584670/gkm304.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:17526524","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17526524","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:1933195","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1933195","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/gkm304","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm304","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W420/9584670/gkm304.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/F4320321026","display_name":"Ministry of Earth Sciences","ror":"https://ror.org/013cf5k59"},{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"},{"id":"https://openalex.org/F4320321528","display_name":"Shanghai Educational Development Foundation","ror":"https://ror.org/0220qvk04"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"},{"id":"https://openalex.org/F4320323443","display_name":"National Chiao Tung University","ror":"https://ror.org/00se2k293"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2033780266.pdf","grobid_xml":"https://content.openalex.org/works/W2033780266.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1530495800","https://openalex.org/W1572961809","https://openalex.org/W1972433022","https://openalex.org/W1977738109","https://openalex.org/W1984073014","https://openalex.org/W1990965195","https://openalex.org/W2021543910","https://openalex.org/W2023765957","https://openalex.org/W2035186247","https://openalex.org/W2041964828","https://openalex.org/W2059324241","https://openalex.org/W2063397057","https://openalex.org/W2071241692","https://openalex.org/W2090464002","https://openalex.org/W2116774744","https://openalex.org/W2119891507","https://openalex.org/W2151908735","https://openalex.org/W2158985494","https://openalex.org/W2159998111","https://openalex.org/W2162739292","https://openalex.org/W2164106566","https://openalex.org/W2166972165","https://openalex.org/W2172242080"],"related_works":["https://openalex.org/W2013211627","https://openalex.org/W2086003339","https://openalex.org/W2145118195","https://openalex.org/W2993396824","https://openalex.org/W1897312405","https://openalex.org/W640278234","https://openalex.org/W2058809752","https://openalex.org/W1965151258","https://openalex.org/W2084584154","https://openalex.org/W2158309235"],"abstract_inverted_index":{"Knotted":[0],"proteins":[1,38,88,96],"are":[2,53],"more":[3],"commonly":[4],"observed":[5],"in":[6,17,37,59,87,97,116,128,163,168],"recent":[7],"years":[8],"due":[9,62],"to":[10,30,63,72,83,160],"the":[11,18,26,41,60,64,73,79,85,117,126,129,132,137,153],"enormously":[12],"growing":[13],"number":[14],"of":[15,44,66],"structures":[16],"Protein":[19],"Data":[20],"Bank":[21],"(PDB).":[22],"Studies":[23],"show":[24],"that":[25,152],"knot":[27],"regions":[28],"contribute":[29],"both":[31,161],"ligand":[32],"binding":[33],"and":[34,165],"enzyme":[35],"activity":[36],"such":[39],"as":[40,89,91],"chromophore-binding":[42],"domain":[43],"phytochrome,":[45],"ketol-acid":[46],"reductoisomerase":[47],"or":[48,112],"SpoU":[49],"methyltransferase.":[50],"However,":[51],"there":[52],"still":[54],"many":[55],"misidentified":[56],"knots":[57,86,127,139],"published":[58],"literature":[61],"absence":[65],"a":[67,145],"convenient":[68],"web":[69,81,102,122,155],"tool":[70],"available":[71],"general":[74,164],"biologists.":[75],"Here,":[76],"we":[77],"present":[78],"first":[80],"server":[82,123,156],"detect":[84,125],"well":[90],"provide":[92],"information":[93],"on":[94],"knotted":[95],"PDB-the":[98],"protein":[99,114,130],"KNOT":[100],"(pKNOT)":[101],"server.":[103],"In":[104],"pKNOT,":[105],"users":[106],"can":[107,140],"either":[108],"input":[109],"PDB":[110,118],"ID":[111],"upload":[113],"coordinates":[115],"format.":[119],"The":[120],"pKNOT":[121,154],"will":[124,157],"using":[131,144],"Taylor's":[133],"smoothing":[134],"algorithm.":[135],"All":[136],"detected":[138],"be":[141,158],"visually":[142],"inspected":[143],"Java-based":[146],"3D":[147],"graphics":[148],"viewer.":[149],"We":[150],"believe":[151],"useful":[159],"biologists":[162,167],"structural":[166],"particular.":[169]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":4}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
