{"id":"https://openalex.org/W2081716857","doi":"https://doi.org/10.1145/299432.299486","title":"Recognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM","display_name":"Recognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM","publication_year":1999,"publication_date":"1999-04-01","ids":{"openalex":"https://openalex.org/W2081716857","doi":"https://doi.org/10.1145/299432.299486","mag":"2081716857"},"language":"en","primary_location":{"id":"doi:10.1145/299432.299486","is_oa":true,"landing_page_url":"https://doi.org/10.1145/299432.299486","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/299432.299486","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the third annual international conference on Computational molecular biology","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://dl.acm.org/doi/pdf/10.1145/299432.299486","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000287650","display_name":"Lawrence A. Kelley","orcid":"https://orcid.org/0000-0002-3210-2656"},"institutions":[{"id":"https://openalex.org/I1292966370","display_name":"The Honourable Society of Lincoln's Inn","ror":"https://ror.org/010npae67","country_code":"GB","type":"other","lineage":["https://openalex.org/I1292966370"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Lawrence A. Kelley","raw_affiliation_strings":["Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]},{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090122303","display_name":"Robert M. MacCallum","orcid":"https://orcid.org/0000-0001-5070-4493"},"institutions":[{"id":"https://openalex.org/I1292966370","display_name":"The Honourable Society of Lincoln's Inn","ror":"https://ror.org/010npae67","country_code":"GB","type":"other","lineage":["https://openalex.org/I1292966370"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Robert M. MacCallum","raw_affiliation_strings":["Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]},{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023619547","display_name":"Michael J.E. Sternberg","orcid":"https://orcid.org/0000-0002-1884-5445"},"institutions":[{"id":"https://openalex.org/I1292966370","display_name":"The Honourable Society of Lincoln's Inn","ror":"https://ror.org/010npae67","country_code":"GB","type":"other","lineage":["https://openalex.org/I1292966370"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Michael J. E. Sternberg","raw_affiliation_strings":["Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]},{"raw_affiliation_string":"Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, 44 Lincoln's Inn Fields, London, WC2A 3PX, England","institution_ids":["https://openalex.org/I1292966370"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I1292966370"],"apc_list":null,"apc_paid":null,"fwci":1.7623,"has_fulltext":true,"cited_by_count":49,"citation_normalized_percentile":{"value":0.8459188,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"218","last_page":"225"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991999864578247,"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":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9962999820709229,"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"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9959999918937683,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/citation","display_name":"Citation","score":0.7645263075828552},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4934026300907135},{"id":"https://openalex.org/keywords/library-science","display_name":"Library science","score":0.4871234893798828},{"id":"https://openalex.org/keywords/position","display_name":"Position (finance)","score":0.47808265686035156},{"id":"https://openalex.org/keywords/new-england","display_name":"New england","score":0.4128918945789337},{"id":"https://openalex.org/keywords/operations-research","display_name":"Operations research","score":0.3745822310447693},{"id":"https://openalex.org/keywords/law","display_name":"Law","score":0.16108763217926025},{"id":"https://openalex.org/keywords/political-science","display_name":"Political science","score":0.13951528072357178},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13654011487960815},{"id":"https://openalex.org/keywords/business","display_name":"Business","score":0.09267967939376831},{"id":"https://openalex.org/keywords/finance","display_name":"Finance","score":0.08337107300758362}],"concepts":[{"id":"https://openalex.org/C2778805511","wikidata":"https://www.wikidata.org/wiki/Q1713","display_name":"Citation","level":2,"score":0.7645263075828552},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4934026300907135},{"id":"https://openalex.org/C161191863","wikidata":"https://www.wikidata.org/wiki/Q199655","display_name":"Library science","level":1,"score":0.4871234893798828},{"id":"https://openalex.org/C198082294","wikidata":"https://www.wikidata.org/wiki/Q3399648","display_name":"Position (finance)","level":2,"score":0.47808265686035156},{"id":"https://openalex.org/C3019323424","wikidata":"https://www.wikidata.org/wiki/Q18389","display_name":"New england","level":3,"score":0.4128918945789337},{"id":"https://openalex.org/C42475967","wikidata":"https://www.wikidata.org/wiki/Q194292","display_name":"Operations research","level":1,"score":0.3745822310447693},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.16108763217926025},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.13951528072357178},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13654011487960815},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.09267967939376831},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.08337107300758362},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/299432.299486","is_oa":true,"landing_page_url":"https://doi.org/10.1145/299432.299486","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/299432.299486","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the third annual international conference on Computational molecular biology","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.1145/299432.299486","is_oa":true,"landing_page_url":"https://doi.org/10.1145/299432.299486","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/299432.299486","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the third annual international conference on Computational molecular biology","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2081716857.pdf","grobid_xml":"https://content.openalex.org/works/W2081716857.grobid-xml"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W1551915691","https://openalex.org/W1970999032","https://openalex.org/W1979147581","https://openalex.org/W2003144438","https://openalex.org/W2028113949","https://openalex.org/W2058336694","https://openalex.org/W2085277871","https://openalex.org/W2102122585","https://openalex.org/W2106882534","https://openalex.org/W2138342766","https://openalex.org/W2143210482","https://openalex.org/W2157750263","https://openalex.org/W2158714788","https://openalex.org/W3147254695","https://openalex.org/W3214380909","https://openalex.org/W4213208922","https://openalex.org/W4213217828","https://openalex.org/W4239620712","https://openalex.org/W4245668478"],"related_works":["https://openalex.org/W4238574758","https://openalex.org/W4317642157","https://openalex.org/W2363440148","https://openalex.org/W4239542068","https://openalex.org/W1974749013","https://openalex.org/W606974335","https://openalex.org/W1771491433","https://openalex.org/W134931362","https://openalex.org/W2317510431","https://openalex.org/W1990811139"],"abstract_inverted_index":{"A":[0],"method":[1,11],"(3D-PSSM)":[2],"to":[3,32,42],"recognise":[4],"remote":[5,70],"protein":[6],"sequence":[7,49],"homologues":[8,71],"is":[9,55,66],"described.The":[10],"uses":[12],"homologous":[13],"proteins":[14],"of":[15,37],"similar":[16],"three-dimensional":[17],"structure":[18],"in":[19,72],"the":[20,73,78],"SCOP":[21,74],"database":[22,75],"(Murzin,":[23],"A.":[24],"G.":[25],"et":[26],"al.,":[27],"1995,":[28],"J.":[29],"Mol.Biol.247,":[30],"536-540)":[31],"obtain":[33],"a":[34,58],"structural":[35],"equivalence":[36],"residues.These":[38],"equivalences":[39],"are":[40,83],"used":[41],"extend":[43],"multiply-aligned":[44],"sequences":[45],"obtained":[46],"by":[47],"standard":[48],"searches":[50],"(i.e.lDprofiles).The":[51],"resultant":[52],"3D":[53],"profile":[54],"converted":[56],"into":[57],"position":[59],"specific":[60],"scoring":[61],"matrix":[62],"(a":[63],"3D-PSSM).The":[64],"approach":[65],"benchmarked":[67],"on":[68],"recognising":[69],"and":[76,80,87],"comparing":[77],"hit":[79],"error":[81],"rates.3D-PSSMs":[82],"compared":[84],"with":[85,88],"lD-PSSMs":[86],"two":[89],"widely-used":[90],"sensitive":[91],"search":[92],"approaches":[93],"-PSI-BLAST":[94],"(Altschul,":[95],"S.":[96]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
