{"id":"https://openalex.org/W1849980826","doi":"https://doi.org/10.1093/bioinformatics/btv637","title":"Fit3D: a web application for highly accurate screening of spatial residue patterns in protein structure data","display_name":"Fit3D: a web application for highly accurate screening of spatial residue patterns in protein structure data","publication_year":2015,"publication_date":"2015-10-30","ids":{"openalex":"https://openalex.org/W1849980826","doi":"https://doi.org/10.1093/bioinformatics/btv637","mag":"1849980826","pmid":"https://pubmed.ncbi.nlm.nih.gov/26519504"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv637","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv637","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/792/25588948/btv637.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/792/25588948/btv637.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5084858146","display_name":"Florian Kaiser","orcid":"https://orcid.org/0000-0003-3775-081X"},"institutions":[{"id":"https://openalex.org/I116397343","display_name":"Hochschule Mittweida","ror":"https://ror.org/024ga3r86","country_code":"DE","type":"education","lineage":["https://openalex.org/I116397343"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Florian Kaiser","raw_affiliation_strings":["Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany","institution_ids":["https://openalex.org/I116397343"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009105974","display_name":"Alexander Eisold","orcid":"https://orcid.org/0000-0002-9361-7450"},"institutions":[{"id":"https://openalex.org/I116397343","display_name":"Hochschule Mittweida","ror":"https://ror.org/024ga3r86","country_code":"DE","type":"education","lineage":["https://openalex.org/I116397343"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alexander Eisold","raw_affiliation_strings":["Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany","institution_ids":["https://openalex.org/I116397343"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017772944","display_name":"Sebastian Bittrich","orcid":"https://orcid.org/0000-0003-3576-0387"},"institutions":[{"id":"https://openalex.org/I116397343","display_name":"Hochschule Mittweida","ror":"https://ror.org/024ga3r86","country_code":"DE","type":"education","lineage":["https://openalex.org/I116397343"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sebastian Bittrich","raw_affiliation_strings":["Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany","institution_ids":["https://openalex.org/I116397343"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023295736","display_name":"Dirk Labudde","orcid":"https://orcid.org/0000-0003-0466-0017"},"institutions":[{"id":"https://openalex.org/I116397343","display_name":"Hochschule Mittweida","ror":"https://ror.org/024ga3r86","country_code":"DE","type":"education","lineage":["https://openalex.org/I116397343"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dirk Labudde","raw_affiliation_strings":["Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Applied Computer and Biosciences, University of Applied Sciences Mittweida, 09648 Mittweida, Germany","institution_ids":["https://openalex.org/I116397343"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5084858146"],"corresponding_institution_ids":["https://openalex.org/I116397343"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.9647,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.73906557,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"32","issue":"5","first_page":"792","last_page":"794"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.8033999800682068,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.8033999800682068,"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/T11162","display_name":"Enzyme Structure and Function","score":0.13860000669956207,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.00419999985024333,"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/computer-science","display_name":"Computer science","score":0.7396799325942993},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.5272428393363953},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4442315995693207},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.43781670928001404},{"id":"https://openalex.org/keywords/data-structure","display_name":"Data structure","score":0.43223798274993896},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3538423776626587},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3536374568939209},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3372983932495117},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19356876611709595},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14877375960350037},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07230034470558167}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7396799325942993},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.5272428393363953},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4442315995693207},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.43781670928001404},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.43223798274993896},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3538423776626587},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3536374568939209},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3372983932495117},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19356876611709595},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14877375960350037},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07230034470558167},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"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":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}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btv637","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv637","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/792/25588948/btv637.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26519504","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26519504","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/5/792","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/5/792","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/bioinformatics/btv637","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv637","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/792/25588948/btv637.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320328735","display_name":"Freistaat Sachsen","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W50172998","https://openalex.org/W1987819535","https://openalex.org/W1999319994","https://openalex.org/W2014474863","https://openalex.org/W2024732820","https://openalex.org/W2106383137","https://openalex.org/W2108909656","https://openalex.org/W2122976061","https://openalex.org/W2130479394","https://openalex.org/W2149625704","https://openalex.org/W2179694298","https://openalex.org/W6602007409","https://openalex.org/W6676302336"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2384888906","https://openalex.org/W2144190808","https://openalex.org/W2376314740","https://openalex.org/W2366644548","https://openalex.org/W2357241418","https://openalex.org/W1582831445","https://openalex.org/W2374775279","https://openalex.org/W2064323202","https://openalex.org/W1849980826"],"abstract_inverted_index":{"UNLABELLED:":[0],"The":[1,62],"clarification":[2],"of":[3,21,52,72,82],"linkage":[4],"between":[5],"protein":[6,57],"structure":[7,36],"and":[8,15,69,87],"function":[9],"is":[10,65],"still":[11],"a":[12],"demanding":[13],"process":[14],"can":[16],"be":[17],"supported":[18],"by":[19],"comparison":[20],"spatial":[22],"residue":[23],"patterns,":[24],"so-called":[25],"structural":[26,53],"motifs.":[27],"However,":[28],"versatile":[29],"up-to-date":[30],"resources":[31],"to":[32],"search":[33],"for":[34,48,89],"local":[35],"similarities":[37],"are":[38,92,102],"rare.":[39],"We":[40],"present":[41],"Fit3D,":[42],"an":[43],"easily":[44],"accessible":[45,66],"web":[46,63],"application":[47,64],"highly":[49],"accurate":[50],"screening":[51],"motifs":[54],"in":[55],"3D":[56],"data.":[58],"AVAILABILITY":[59],"AND":[60],"IMPLEMENTATION:":[61],"at":[67,94,104],"https://biosciences.hs-mittweida.de/fit3d":[68],"program":[70],"sources":[71],"the":[73,80],"command":[74],"line":[75],"version":[76],"were":[77],"released":[78],"under":[79],"terms":[81],"GNU":[83],"GPLv3.":[84],"Platform-independent":[85],"binaries":[86],"documentations":[88],"offline":[90],"usage":[91],"available":[93,103],"https://bitbucket.org/fkaiser/fit3d":[95],"CONTACT:":[96],"florian.kaiser@hs-mittweida.de":[97],"SUPPLEMENTARY":[98],"INFORMATION:":[99],"Supplementary":[100],"data":[101],"Bioinformatics":[105],"online.":[106]},"counts_by_year":[{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}