{"id":"https://openalex.org/W2093148866","doi":"https://doi.org/10.1186/1471-2105-15-87","title":"Estimation of protein function using template-based alignment of enzyme active sites","display_name":"Estimation of protein function using template-based alignment of enzyme active sites","publication_year":2014,"publication_date":"2014-03-27","ids":{"openalex":"https://openalex.org/W2093148866","doi":"https://doi.org/10.1186/1471-2105-15-87","mag":"2093148866","pmid":"https://pubmed.ncbi.nlm.nih.gov/24669788"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-15-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-87","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-87","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-87","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071500905","display_name":"Brett R. Hanson","orcid":null},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Brett Hanson","raw_affiliation_strings":["University of California, Irvine, CA, USA","University of California Irvine (USA)"],"affiliations":[{"raw_affiliation_string":"University of California, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578"]},{"raw_affiliation_string":"University of California Irvine (USA)","institution_ids":["https://openalex.org/I204250578"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016145106","display_name":"Charles Westin","orcid":null},"institutions":[{"id":"https://openalex.org/I142740786","display_name":"University of Louisville","ror":"https://ror.org/01ckdn478","country_code":"US","type":"education","lineage":["https://openalex.org/I142740786"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles Westin","raw_affiliation_strings":["University of Louisville, Louisville, KY, USA","University Of Louisville, Louisville, USA"],"affiliations":[{"raw_affiliation_string":"University of Louisville, Louisville, KY, USA","institution_ids":["https://openalex.org/I142740786"]},{"raw_affiliation_string":"University Of Louisville, Louisville, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036684091","display_name":"Mario De Rosa","orcid":"https://orcid.org/0000-0002-2976-0818"},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mario Rosa","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088387507","display_name":"Alexander Grier","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander Grier","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048670055","display_name":"Mikhail Osipovitch","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mikhail Osipovitch","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087364311","display_name":"Madolyn L. MacDonald","orcid":"https://orcid.org/0000-0001-5590-1365"},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Madolyn L MacDonald","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080690295","display_name":"Greg J. Dodge","orcid":"https://orcid.org/0000-0002-6555-8350"},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Greg Dodge","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043534435","display_name":"Paule M Boli","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paule M Boli","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066004180","display_name":"Cyprian Corwin","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cyprian W Corwin","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059516718","display_name":"Haeja Kessler","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Haeja Kessler","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057410726","display_name":"Talia McKay","orcid":null},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Talia McKay","raw_affiliation_strings":["Rochester Institute of Technology, Rochester, NY, USA","Rochester Institute of Technology,Rochester,USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, Rochester, NY, USA","institution_ids":["https://openalex.org/I155173764"]},{"raw_affiliation_string":"Rochester Institute of Technology,Rochester,USA","institution_ids":["https://openalex.org/I155173764"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037055623","display_name":"H. J. Bernstein","orcid":"https://orcid.org/0000-0002-0517-8532"},"institutions":[{"id":"https://openalex.org/I162646704","display_name":"Dowling College","ror":"https://ror.org/011ezgm44","country_code":"US","type":"education","lineage":["https://openalex.org/I162646704"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Herbert J Bernstein","raw_affiliation_strings":["Dowling College, Shirley, NY, USA","Dowling College, Shirley, USA"],"affiliations":[{"raw_affiliation_string":"Dowling College, Shirley, NY, USA","institution_ids":["https://openalex.org/I162646704"]},{"raw_affiliation_string":"Dowling College, Shirley, USA","institution_ids":["https://openalex.org/I162646704"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059797329","display_name":"P. Craig","orcid":"https://orcid.org/0000-0002-2085-7816"},"institutions":[{"id":"https://openalex.org/I155173764","display_name":"Rochester Institute of Technology","ror":"https://ror.org/00v4yb702","country_code":"US","type":"education","lineage":["https://openalex.org/I155173764"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paul A Craig","raw_affiliation_strings":["Rochester Institute of Technology, School of Chemistry & Materials Science, 1 Lomb Memorial Drive, Rochester, NY 14623, USA. paul.craig@rit.edu","Rochester Institute of Technology, School of Chemistry & Materials Science, Rochester, USA"],"affiliations":[{"raw_affiliation_string":"Rochester Institute of Technology, School of Chemistry & Materials Science, 1 Lomb Memorial Drive, Rochester, NY 14623, USA. paul.craig@rit.edu","institution_ids":[]},{"raw_affiliation_string":"Rochester Institute of Technology, School of Chemistry & Materials Science, Rochester, USA","institution_ids":["https://openalex.org/I155173764"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5071500905"],"corresponding_institution_ids":["https://openalex.org/I204250578"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.9982,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.75614894,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"15","issue":"1","first_page":"87","last_page":"87"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9990000128746033,"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":0.9990000128746033,"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":0.9980999827384949,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9973000288009644,"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/levenshtein-distance","display_name":"Levenshtein distance","score":0.7327171564102173},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6509276628494263},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5508808493614197},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.5102770328521729},{"id":"https://openalex.org/keywords/disk-formatting","display_name":"Disk formatting","score":0.5019984245300293},{"id":"https://openalex.org/keywords/molecular-graphics","display_name":"Molecular graphics","score":0.4634556472301483},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4406706988811493},{"id":"https://openalex.org/keywords/active-site","display_name":"Active site","score":0.4210205674171448},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4179856777191162},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.30503442883491516},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics","score":0.30027949810028076},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2361176311969757},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23291364312171936},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19017308950424194},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.14189282059669495},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.12184962630271912},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10721170902252197}],"concepts":[{"id":"https://openalex.org/C2777515626","wikidata":"https://www.wikidata.org/wiki/Q496939","display_name":"Levenshtein distance","level":2,"score":0.7327171564102173},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6509276628494263},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5508808493614197},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.5102770328521729},{"id":"https://openalex.org/C88006597","wikidata":"https://www.wikidata.org/wiki/Q690117","display_name":"Disk formatting","level":2,"score":0.5019984245300293},{"id":"https://openalex.org/C126766683","wikidata":"https://www.wikidata.org/wiki/Q6896006","display_name":"Molecular graphics","level":3,"score":0.4634556472301483},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4406706988811493},{"id":"https://openalex.org/C41183919","wikidata":"https://www.wikidata.org/wiki/Q423026","display_name":"Active site","level":3,"score":0.4210205674171448},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4179856777191162},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.30503442883491516},{"id":"https://openalex.org/C77660652","wikidata":"https://www.wikidata.org/wiki/Q150971","display_name":"Computer graphics","level":2,"score":0.30027949810028076},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2361176311969757},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23291364312171936},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19017308950424194},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.14189282059669495},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.12184962630271912},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10721170902252197},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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}],"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":"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":"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":"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":"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":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","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":false},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, 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":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-15-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-87","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-87","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24669788","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24669788","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:escholarship.org/ark:/13030/qt0wh6s65w","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/0wh6s65w","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, vol 15, iss 1","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4229977","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4229977","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-15-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-87","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-87","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2098292282","display_name":null,"funder_award_id":"78077","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3260286065","display_name":null,"funder_award_id":"R15GM078077","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3558357223","display_name":null,"funder_award_id":"GM078077","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6238825211","display_name":null,"funder_award_id":"1R15GM078077","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7387194792","display_name":null,"funder_award_id":"0402408","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2093148866.pdf","grobid_xml":"https://content.openalex.org/works/W2093148866.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W115380128","https://openalex.org/W255996521","https://openalex.org/W1571989632","https://openalex.org/W1590165017","https://openalex.org/W1647671624","https://openalex.org/W1964640688","https://openalex.org/W1970114563","https://openalex.org/W1971099088","https://openalex.org/W1977266865","https://openalex.org/W1995260859","https://openalex.org/W1998014636","https://openalex.org/W2012227432","https://openalex.org/W2012544092","https://openalex.org/W2061098334","https://openalex.org/W2078866107","https://openalex.org/W2081771568","https://openalex.org/W2089683277","https://openalex.org/W2091861424","https://openalex.org/W2102333330","https://openalex.org/W2102612168","https://openalex.org/W2119027485","https://openalex.org/W2127322768","https://openalex.org/W2131736388","https://openalex.org/W2136709699","https://openalex.org/W2153463820","https://openalex.org/W2158714788","https://openalex.org/W2498883981","https://openalex.org/W2611200784","https://openalex.org/W3167434592","https://openalex.org/W4205669956"],"related_works":["https://openalex.org/W4244466418","https://openalex.org/W2104062382","https://openalex.org/W2162878363","https://openalex.org/W2389021890","https://openalex.org/W3023343521","https://openalex.org/W2028584028","https://openalex.org/W2093148866","https://openalex.org/W2406523068","https://openalex.org/W4235303116","https://openalex.org/W3090497711"],"abstract_inverted_index":{"The":[0],"ProMOL":[1],"plugin":[2],"for":[3],"PyMOL":[4],"provides":[5],"ready":[6],"access":[7],"to":[8,14],"template-based":[9],"local":[10],"alignments.":[11],"Recent":[12],"improvements":[13],"ProMOL,":[15],"including":[16],"the":[17,30,38,41],"expanded":[18],"motif":[19],"library,":[20],"RMSD":[21],"calculations":[22],"and":[23,33,35],"output":[24],"selection":[25],"formatting,":[26],"have":[27,36],"greatly":[28],"increased":[29],"program's":[31],"usability":[32],"speed,":[34],"improved":[37],"way":[39],"that":[40],"results":[42],"are":[43],"presented.":[44]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
