{"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":false,"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"],"raw_orcid":null,"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, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["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, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["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"]},{"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":true,"raw_author_name":"P. J. Artymiuk","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I91136226"]},{"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"]},{"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":true,"raw_author_name":"M. Firdaus-Raih","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","National University of Malaysia, Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia, 2 Information School and 3 Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I91136226"]},{"raw_affiliation_string":"National University of Malaysia, Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5070763648","https://openalex.org/A5108693804"],"corresponding_institution_ids":["https://openalex.org/I885383172","https://openalex.org/I91136226"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":1.2276,"has_fulltext":false,"cited_by_count":57,"citation_normalized_percentile":{"value":0.77408777,"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":"http://eprints.whiterose.ac.uk/74880/1/W380.full.pdf","pdf_url":"http://eprints.whiterose.ac.uk/74880/1/W380.full.pdf","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: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: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: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":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2024993723.pdf"},"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":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
