{"id":"https://openalex.org/W1979107927","doi":"https://doi.org/10.1093/nar/gkm346","title":"3D-partner: a web server to infer interacting partners and binding models","display_name":"3D-partner: a web server to infer interacting partners and binding models","publication_year":2007,"publication_date":"2007-05-22","ids":{"openalex":"https://openalex.org/W1979107927","doi":"https://doi.org/10.1093/nar/gkm346","mag":"1979107927","pmid":"https://pubmed.ncbi.nlm.nih.gov/17517763"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkm346","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm346","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W561/16747220/gkm346.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/W561/16747220/gkm346.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111648539","display_name":"Yung-Chiang Chen","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":"Yung-Chiang Chen","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan","Institute of 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","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111648538","display_name":"Yu-Shu Lo","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":"Yu-Shu Lo","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","National Yang Ming Chiao Tung University, Hsinchu, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"National Yang Ming Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108737340","display_name":"Wen-Chang Hsu","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":"Wen-Chang Hsu","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","National Yang Ming Chiao Tung University, Hsinchu, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"National Yang Ming Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088590993","display_name":"Jinn\u2010Moon Yang","orcid":"https://orcid.org/0000-0002-3205-4391"},"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":"Jinn-Moon Yang","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","Department of Biological Science and Technology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu, 30050, Taiwan, 2 Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, 30050, Taiwan and 3 Core Facility for Structural Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Department of Biological Science and Technology","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5088590993"],"corresponding_institution_ids":["https://openalex.org/I148366613"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.2651,"has_fulltext":true,"cited_by_count":46,"citation_normalized_percentile":{"value":0.87502175,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"35","issue":"suppl_2","first_page":"W561","last_page":"W567"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994999766349792,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994999766349792,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9987999796867371,"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":0.9980999827384949,"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/web-server","display_name":"Web server","score":0.6332401633262634},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5985232591629028},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.5255635976791382},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.49683335423469543},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.464895635843277},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4451161324977875},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44254568219184875},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.43776294589042664},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.4104922413825989},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35038232803344727},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3317452669143677},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.291399747133255},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.26171714067459106},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.21285468339920044},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15578091144561768},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.15442830324172974}],"concepts":[{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6332401633262634},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5985232591629028},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.5255635976791382},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.49683335423469543},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.464895635843277},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4451161324977875},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44254568219184875},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.43776294589042664},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.4104922413825989},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35038232803344727},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3317452669143677},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.291399747133255},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.26171714067459106},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.21285468339920044},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15578091144561768},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.15442830324172974},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","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}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkm346","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm346","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W561/16747220/gkm346.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:17517763","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17517763","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:10.1.1.276.4683","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.276.4683","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/b1/3d/Nucleic_Acids_Res_2007_Jul_35(Web_Server_issue)_W561-W567.tar.gz","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.279.7203","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.279.7203","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/b1/3d/Nucleic_Acids_Res_2007_Jul_35(Web_Server_issue)_W561-W567.tar.gz","raw_type":"text"},{"id":"pmh:oai:pubmedcentral.nih.gov:1933210","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1933210","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/gkm346","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm346","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W561/16747220/gkm346.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/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"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1979107927.pdf","grobid_xml":"https://content.openalex.org/works/W1979107927.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W21816278","https://openalex.org/W36110143","https://openalex.org/W140739788","https://openalex.org/W1527927437","https://openalex.org/W1926206225","https://openalex.org/W1932376175","https://openalex.org/W2005386926","https://openalex.org/W2015465083","https://openalex.org/W2025120281","https://openalex.org/W2045131140","https://openalex.org/W2057885377","https://openalex.org/W2062842205","https://openalex.org/W2079988374","https://openalex.org/W2083978969","https://openalex.org/W2097463865","https://openalex.org/W2100371004","https://openalex.org/W2107811186","https://openalex.org/W2113654464","https://openalex.org/W2124463526","https://openalex.org/W2125725297","https://openalex.org/W2134279864","https://openalex.org/W2136525667","https://openalex.org/W2141490615","https://openalex.org/W2143210482","https://openalex.org/W2144231753","https://openalex.org/W2148853951","https://openalex.org/W2149310258","https://openalex.org/W2157735020","https://openalex.org/W2160223331","https://openalex.org/W2161441225","https://openalex.org/W2161732286","https://openalex.org/W2161811112","https://openalex.org/W2166458835","https://openalex.org/W2167869241","https://openalex.org/W2753765968","https://openalex.org/W4252706339","https://openalex.org/W6640341922"],"related_works":["https://openalex.org/W2056619794","https://openalex.org/W2105364679","https://openalex.org/W2135668486","https://openalex.org/W1996516710","https://openalex.org/W2108893546","https://openalex.org/W3116784128","https://openalex.org/W2776264363","https://openalex.org/W2137974866","https://openalex.org/W4252097797","https://openalex.org/W2138458178"],"abstract_inverted_index":{"The":[0,43,139,161,206],"3D-partner":[1,26,118,193],"is":[2,152,167,182,208],"a":[3,14,22,36,39,70,180],"web":[4],"tool":[5],"to":[6,30,53,101],"predict":[7],"interacting":[8,55,78,111,137],"partners":[9],"and":[10,21,85,88,96,110,129,133,144,172,202],"binding":[11,124,146,203],"models":[12,125],"of":[13,35,47,57,136,148,164,176],"query":[15,37,59,109,181],"protein":[16,61],"sequence":[17,45,62],"through":[18],"structure":[19],"complexes":[20],"new":[23,71],"scoring":[24,72,116,150],"function.":[25],"first":[27],"utilizes":[28],"IMPALA":[29],"identify":[31],"homologous":[32],"structures":[33],"(templates)":[34],"from":[38,60,158],"heterodimer":[40],"profile":[41],"library.":[42],"interacting-partner":[44],"profiles":[46],"these":[48],"templates":[49],"are":[50],"then":[51],"used":[52],"search":[54],"candidates":[56],"the":[58,76,81,89,97,105,108,120,123,159,165,173,192],"databases":[63],"(e.g.":[64,80,93,126],"SwissProt)":[65],"by":[66],"PSI-BLAST.":[67],"We":[68],"developed":[69],"function,":[73,117],"which":[74],"includes":[75],"contact-residue":[77],"score":[79,92],"steric,":[82],"hydrogen":[83,127],"bonds,":[84],"electrostatic":[86],"interactions)":[87],"template":[90,98],"consensus":[91],"couple-conserved":[94],"residue":[95],"similarity":[99],"scores),":[100],"evaluate":[102],"how":[103],"well":[104],"interfaces":[106],"between":[107,141],"candidates.":[112],"Based":[113],"on":[114,154,169,186],"this":[115,177],"provides":[119],"statistic":[121],"significance,":[122],"bonds":[128],"conserved":[130],"amino":[131],"acids)":[132],"functional":[134],"annotations":[135],"partners.":[138],"correlation":[140],"experimental":[142],"energies":[143],"predicted":[145],"affinities":[147],"our":[149],"function":[151],"0.91":[153],"275":[155],"mutated":[156],"residues":[157],"ASEdb.":[160],"average":[162],"precision":[163],"server":[166,178,194,207],"0.72":[168],"563":[170],"queries":[171],"execution":[174],"time":[175],"for":[179],"approximately":[183],"15":[184],"s":[185],"average.":[187],"These":[188],"results":[189],"suggest":[190],"that":[191],"can":[195],"be":[196],"useful":[197],"in":[198],"protein-protein":[199],"interaction":[200],"predictions":[201],"model":[204],"visualizations.":[205],"available":[209],"online":[210],"at:":[211],"http://3D-partner.life.nctu.edu.tw.":[212]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":6}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
