{"id":"https://openalex.org/W2024993723","doi":"https://doi.org/10.1093/nar/gks401","title":"SPRITE and ASSAM: web servers for side chain 3D-motif searching in protein structures","display_name":"SPRITE and ASSAM: web servers for side chain 3D-motif searching in protein structures","publication_year":2012,"publication_date":"2012-05-09","ids":{"openalex":"https://openalex.org/W2024993723","doi":"https://doi.org/10.1093/nar/gks401","mag":"2024993723","pmid":"https://pubmed.ncbi.nlm.nih.gov/22573174"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gks401","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks401","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W380/4913455/gks401.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/40/W1/W380/4913455/gks401.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5045063601","display_name":"Nurul Nadzirin","orcid":"https://orcid.org/0000-0001-9080-2653"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":true,"raw_author_name":"N. Nadzirin","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","School of Biosciences and Biotechnology, Faculty of Science & Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia"],"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]},{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science & Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020583782","display_name":"Elliroma Gardiner","orcid":"https://orcid.org/0000-0002-2500-8549"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]},{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB","MY"],"is_corresponding":false,"raw_author_name":"E. J. Gardiner","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2Information School and 3Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2Information School and 3Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I885383172","https://openalex.org/I91136226"]},{"raw_affiliation_string":"National University of Malaysia, Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102885255","display_name":"Peter Willett","orcid":"https://orcid.org/0000-0003-4591-7173"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]},{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB","MY"],"is_corresponding":false,"raw_author_name":"P. Willett","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2Information School and 3Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2Information School and 3Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I885383172","https://openalex.org/I91136226"]},{"raw_affiliation_string":"National University of Malaysia, Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108693804","display_name":"P.J. Artymiuk","orcid":null},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"P. J. Artymiuk","raw_affiliation_strings":["National University of Malaysia, Bangi, Malaysia"],"affiliations":[{"raw_affiliation_string":"National University of Malaysia, Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070763648","display_name":"Mohd Firdaus\u2010Raih","orcid":"https://orcid.org/0000-0003-4275-4663"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"M. Firdaus-Raih","raw_affiliation_strings":["National University of Malaysia, Bangi, Malaysia"],"affiliations":[{"raw_affiliation_string":"National University of Malaysia, Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5045063601"],"corresponding_institution_ids":["https://openalex.org/I885383172"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":1.3446,"has_fulltext":false,"cited_by_count":57,"citation_normalized_percentile":{"value":0.79408673,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"40","issue":"W1","first_page":"W380","last_page":"W386"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9997000098228455,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9962999820709229,"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/sprite","display_name":"Sprite (computer graphics)","score":0.8251522183418274},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.766301155090332},{"id":"https://openalex.org/keywords/side-chain","display_name":"Side chain","score":0.6051474809646606},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5769917368888855},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5587161779403687},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5000383853912354},{"id":"https://openalex.org/keywords/login","display_name":"Login","score":0.46927204728126526},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.4337994456291199},{"id":"https://openalex.org/keywords/traverse","display_name":"Traverse","score":0.4330931305885315},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.43236905336380005},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3927907645702362},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.39055755734443665},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.3788861036300659},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.269383043050766},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1985018253326416},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.189985454082489},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.17059335112571716},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.13548630475997925},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.1270483136177063},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.11650556325912476},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.09296983480453491}],"concepts":[{"id":"https://openalex.org/C37064505","wikidata":"https://www.wikidata.org/wiki/Q1333015","display_name":"Sprite (computer graphics)","level":2,"score":0.8251522183418274},{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.766301155090332},{"id":"https://openalex.org/C204921945","wikidata":"https://www.wikidata.org/wiki/Q899689","display_name":"Side chain","level":3,"score":0.6051474809646606},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5769917368888855},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5587161779403687},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5000383853912354},{"id":"https://openalex.org/C113324615","wikidata":"https://www.wikidata.org/wiki/Q472302","display_name":"Login","level":2,"score":0.46927204728126526},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4337994456291199},{"id":"https://openalex.org/C176809094","wikidata":"https://www.wikidata.org/wiki/Q15401496","display_name":"Traverse","level":2,"score":0.4330931305885315},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.43236905336380005},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3927907645702362},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.39055755734443665},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.3788861036300659},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.269383043050766},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1985018253326416},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.189985454082489},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.17059335112571716},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.13548630475997925},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.1270483136177063},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.11650556325912476},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.09296983480453491},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0},{"id":"https://openalex.org/C521977710","wikidata":"https://www.wikidata.org/wiki/Q81163","display_name":"Polymer","level":2,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","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":"D018272","descriptor_name":"Porins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018272","descriptor_name":"Porins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018272","descriptor_name":"Porins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","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":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1093/nar/gks401","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks401","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W380/4913455/gks401.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:22573174","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22573174","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:eprints.whiterose.ac.uk:74880","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400854","display_name":"White Rose Research Online (University of Leeds, The University of Sheffield, University of York)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2800616092","host_organization_name":"White Rose University Consortium","host_organization_lineage":["https://openalex.org/I2800616092"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.789.114","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.789.114","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/c1/57/gks401.PMC3394286.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.981.7285","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.981.7285","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/early/2012/05/09/nar.gks401.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.985.8300","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.985.8300","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/40/W1/W380.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.989.8466","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.989.8466","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/40/W1/W380.full-text-lowres.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:2409761","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3394286","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:nar:40/W1/W380","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/40/W1/W380","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/gks401","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks401","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W380/4913455/gks401.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":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2024993723.pdf","grobid_xml":"https://content.openalex.org/works/W2024993723.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1657879109","https://openalex.org/W1764151989","https://openalex.org/W1964640688","https://openalex.org/W1979263745","https://openalex.org/W1986199568","https://openalex.org/W1986969007","https://openalex.org/W1987622073","https://openalex.org/W1999319994","https://openalex.org/W2017727500","https://openalex.org/W2026258231","https://openalex.org/W2026320281","https://openalex.org/W2026370952","https://openalex.org/W2030517878","https://openalex.org/W2042990275","https://openalex.org/W2077180051","https://openalex.org/W2091861424","https://openalex.org/W2100494857","https://openalex.org/W2101449937","https://openalex.org/W2108302275","https://openalex.org/W2114930488","https://openalex.org/W2116007667","https://openalex.org/W2123440974","https://openalex.org/W2124078766","https://openalex.org/W2125800162","https://openalex.org/W2126359798","https://openalex.org/W2130479394","https://openalex.org/W2146231163","https://openalex.org/W2147135057"],"related_works":["https://openalex.org/W2145118195","https://openalex.org/W2556222602","https://openalex.org/W1897312405","https://openalex.org/W2165511275","https://openalex.org/W2058809752","https://openalex.org/W2124126888","https://openalex.org/W2024993723","https://openalex.org/W2615841538","https://openalex.org/W2255477116","https://openalex.org/W4286567102"],"abstract_inverted_index":{"Similarities":[0],"in":[1,54,107,123,145],"the":[2,17,59,70,86,89,93,96,102,108],"3D":[3,49,135],"patterns":[4,128],"of":[5,19,69,113,120,137],"amino":[6,32,50,60],"acid":[7,33,61],"side":[8,51,62,121],"chains":[9,63,122],"can":[10,46,78,139,167],"provide":[11],"insights":[12],"into":[13],"their":[14],"function":[15],"despite":[16],"absence":[18],"any":[20,157],"detectable":[21],"sequence":[22],"or":[23],"fold":[24],"similarities.":[25],"Search":[26],"for":[27,36,48,142],"protein":[28,55],"sites":[29],"(SPRITE)":[30],"and":[31,38],"pattern":[34,77,136],"search":[35,47],"substructures":[37],"motifs":[39],"(ASSAM)":[40],"are":[41,88,95,153],"graph":[42,84],"theoretical":[43],"programs":[44,100,152],"that":[45],"chain":[52],"matches":[53,119],"structures,":[56],"by":[57],"representing":[58],"as":[64,75,81],"pseudo-atoms.":[65],"The":[66,111],"geometric":[67],"relationship":[68],"pseudo-atoms":[71,87],"to":[72,105,117,127],"each":[73],"other":[74],"a":[76,82,124,134],"be":[79,106,140,168],"represented":[80],"labeled":[83],"where":[85],"graph's":[90],"nodes":[91],"while":[92,165],"edges":[94],"inter-pseudo-atomic":[97],"distances.":[98],"Both":[99,151],"require":[101],"input":[103],"file":[104],"PDB":[109,147],"format.":[110],"objective":[112],"using":[114,149],"SPRITE":[115,160],"is":[116,161],"identify":[118],"query":[125],"structure":[126],"with":[129],"characterized":[130],"function.":[131],"In":[132],"contrast,":[133],"interest":[138],"searched":[141],"existing":[143],"occurrences":[144],"available":[146,162],"structures":[148],"ASSAM.":[150],"freely":[154],"accessible":[155],"without":[156],"login":[158],"requirement.":[159],"at":[163,170],"http://mfrlab.org/grafss/sprite/":[164],"ASSAM":[166],"accessed":[169],"http://mfrlab.org/grafss/assam/.":[171]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
