{"id":"https://openalex.org/W2165459420","doi":"https://doi.org/10.1093/nar/gkq314","title":"GIS: a comprehensive source for protein structure similarities","display_name":"GIS: a comprehensive source for protein structure similarities","publication_year":2010,"publication_date":"2010-05-11","ids":{"openalex":"https://openalex.org/W2165459420","doi":"https://doi.org/10.1093/nar/gkq314","mag":"2165459420","pmid":"https://pubmed.ncbi.nlm.nih.gov/20460464"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkq314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq314","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W46/3833553/gkq314.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/38/suppl_2/W46/3833553/gkq314.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032668613","display_name":"Aysam Guerler","orcid":"https://orcid.org/0000-0001-6513-2539"},"institutions":[{"id":"https://openalex.org/I75951250","display_name":"Freie Universit\u00e4t Berlin","ror":"https://ror.org/046ak2485","country_code":"DE","type":"education","lineage":["https://openalex.org/I75951250"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"A. Guerler","raw_affiliation_strings":["Freie Universit\u00e4t Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany","Freie Universit\u00ef\u00bf\u00bdt Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Freie Universit\u00e4t Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany","institution_ids":["https://openalex.org/I75951250"]},{"raw_affiliation_string":"Freie Universit\u00ef\u00bf\u00bdt Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany","institution_ids":["https://openalex.org/I75951250"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084974774","display_name":"E. W. Knapp","orcid":"https://orcid.org/0000-0002-2858-0460"},"institutions":[{"id":"https://openalex.org/I75951250","display_name":"Freie Universit\u00e4t Berlin","ror":"https://ror.org/046ak2485","country_code":"DE","type":"education","lineage":["https://openalex.org/I75951250"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"E.-W. Knapp","raw_affiliation_strings":["Freie Universit\u00ef\u00bf\u00bdt Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Freie Universit\u00ef\u00bf\u00bdt Berlin, Institute of Chemistry and Biochemistry, Fabeckstrasse 36a, 14195 Berlin, Germany","institution_ids":["https://openalex.org/I75951250"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5084974774"],"corresponding_institution_ids":["https://openalex.org/I75951250"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.2241,"has_fulltext":true,"cited_by_count":19,"citation_normalized_percentile":{"value":0.88618016,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"38","issue":"Web Server","first_page":"W46","last_page":"W52"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994000196456909,"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":0.989300012588501,"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/upload","display_name":"Upload","score":0.6843000650405884},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5534650087356567},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5481047630310059},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.5014317035675049},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.4854438900947571},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4546821415424347},{"id":"https://openalex.org/keywords/computational-science-and-engineering","display_name":"Computational Science and Engineering","score":0.42204004526138306},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3987157642841339},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.36146819591522217},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2459428310394287},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.20202746987342834},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.1237708032131195},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10984295606613159}],"concepts":[{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.6843000650405884},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5534650087356567},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5481047630310059},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.5014317035675049},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.4854438900947571},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4546821415424347},{"id":"https://openalex.org/C68597687","wikidata":"https://www.wikidata.org/wiki/Q362601","display_name":"Computational Science and Engineering","level":2,"score":0.42204004526138306},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3987157642841339},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.36146819591522217},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2459428310394287},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.20202746987342834},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.1237708032131195},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10984295606613159}],"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":"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":"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":"D017434","descriptor_name":"Protein Structure, Tertiary","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":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","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":"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},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkq314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq314","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W46/3833553/gkq314.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:20460464","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20460464","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:2896118","is_oa":true,"landing_page_url":"http://doi.org/10.1093/nar/gkq314","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:nar:38/suppl_2/W46","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/38/suppl_2/W46","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/nar/gkq314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq314","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W46/3833553/gkq314.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":[{"score":0.4099999964237213,"id":"https://metadata.un.org/sdg/16","display_name":"Peace, Justice and strong institutions"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2165459420.pdf","grobid_xml":"https://content.openalex.org/works/W2165459420.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1510161841","https://openalex.org/W1544273645","https://openalex.org/W1794629994","https://openalex.org/W1801992990","https://openalex.org/W1973503184","https://openalex.org/W2013025153","https://openalex.org/W2017111672","https://openalex.org/W2033954150","https://openalex.org/W2037416635","https://openalex.org/W2046611286","https://openalex.org/W2081771568","https://openalex.org/W2085277871","https://openalex.org/W2098295536","https://openalex.org/W2101060075","https://openalex.org/W2102245393","https://openalex.org/W2110397834","https://openalex.org/W2110483430","https://openalex.org/W2130479394","https://openalex.org/W2133740529","https://openalex.org/W2137796207","https://openalex.org/W2139282850","https://openalex.org/W2143210482","https://openalex.org/W2146087465","https://openalex.org/W2146143038","https://openalex.org/W2152183846","https://openalex.org/W2152326664","https://openalex.org/W2157410466","https://openalex.org/W2161370818","https://openalex.org/W2161899160","https://openalex.org/W2316538419","https://openalex.org/W2977588244","https://openalex.org/W4256395558"],"related_works":["https://openalex.org/W2487162673","https://openalex.org/W2944823289","https://openalex.org/W2942366970","https://openalex.org/W2793211469","https://openalex.org/W2949152769","https://openalex.org/W4372354731","https://openalex.org/W3037018281","https://openalex.org/W2562400057","https://openalex.org/W1692008701","https://openalex.org/W2972592048"],"abstract_inverted_index":{"A":[0],"web":[1],"service":[2],"for":[3,31,165],"analysis":[4],"of":[5,45,85,124,175],"protein":[6,87,95,103,125,134,148,163,167,173],"structures":[7,126,164,174],"that":[8],"are":[9],"sequentially":[10],"or":[11,182],"non-sequentially":[12],"similar":[13],"was":[14,23,70],"generated.":[15],"Recently,":[16],"the":[17,41,77,101,121,153,176],"non-sequential":[18,28],"structure":[19,47,96,104,135,149,168],"alignment":[20,170],"algorithm":[21],"GANGSTA+":[22,25,39,69,112,128],"introduced.":[24],"can":[26,159],"detect":[27,57],"structural":[29,58],"analogs":[30],"proteins":[32,62],"stated":[33],"to":[34,56,119,130,139,146,152],"possess":[35],"novel":[36],"folds.":[37],"Since":[38],"ignores":[40],"polypeptide":[42],"chain":[43],"connectivity":[44],"secondary":[46],"elements":[48],"(i.e.":[49],"alpha-helices":[50],"and":[51],"beta-strands),":[52],"it":[53],"is":[54,186],"able":[55],"similarities":[59],"also":[60,117],"between":[61],"whose":[63],"sequences":[64],"were":[65],"reshuffled":[66],"during":[67],"evolution.":[68],"applied":[71],"in":[72],"an":[73,131],"all-against-all":[74],"comparison":[75],"on":[76],"ASTRAL40":[78,122,177],"database":[79,123,178],"(SCOP":[80,179],"version":[81,180],"1.75),":[82],"which":[83],"consists":[84],">10,000":[86],"domains":[88],"yielding":[89],"about":[90],"55":[91],"x":[92],"10(6)":[93],"possible":[94],"alignments.":[97],"Here,":[98],"we":[99],"provide":[100],"resulting":[102],"alignments":[105],"as":[106],"a":[107],"public":[108],"web-based":[109],"service,":[110],"named":[111],"Internet":[113],"Services":[114],"(GIS).":[115],"We":[116],"allow":[118],"browse":[120],"with":[127],"relative":[129],"externally":[132],"given":[133],"using":[136],"different":[137],"constraints":[138],"select":[140],"specific":[141],"results.":[142],"GIS":[143,185],"allows":[144],"us":[145],"analyze":[147],"families":[150],"according":[151],"SCOP":[154],"classification":[155],"scheme.":[156],"Additionally,":[157],"users":[158],"upload":[160],"their":[161],"own":[162],"pairwise":[166],"comparison,":[169],"against":[171],"all":[172],"1.75)":[181],"symmetry":[183],"analysis.":[184],"publicly":[187],"available":[188],"at":[189],"http://agknapp.chemie.fu-berlin.de/gplus.":[190]},"counts_by_year":[{"year":2016,"cited_by_count":2},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":6}],"updated_date":"2026-06-17T06:14:20.161405","created_date":"2025-10-10T00:00:00"}
