{"id":"https://openalex.org/W2114496049","doi":null,"title":"Glimmers in the midnight zone: characterization of aligned identical residues in sequence-dissimilar proteins sharing a common fold.","display_name":"Glimmers in the midnight zone: characterization of aligned identical residues in sequence-dissimilar proteins sharing a common fold.","publication_year":2000,"publication_date":"2000-01-01","ids":{"openalex":"https://openalex.org/W2114496049","mag":"2114496049","pmid":"https://pubmed.ncbi.nlm.nih.gov/10977077"},"language":"en","primary_location":{"id":"pmid:10977077","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/10977077","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,"listed_in":[],"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":"Proceedings. International Conference on Intelligent Systems for Molecular Biology","raw_type":"Journal Article"},"volume":null,"type":"conference-paper","is_traditional":true,"indexed_in":["pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041597050","display_name":"Iddo Friedberg","orcid":"https://orcid.org/0000-0002-1789-8000","observed_orcids":["https://orcid.org/0000-0002-1789-8000"]},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]},{"id":"https://openalex.org/I2799899409","display_name":"Hadassah Medical Center","ror":"https://ror.org/01cqmqj90","country_code":"IL","type":"healthcare","lineage":["https://openalex.org/I2799899409"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"I Friedberg","raw_affiliation_strings":["Department of Molecular Genetics and Biotechnology, The Hebrew University-Hadassah Medical School, Jerusalem, Israel. idoerg@cc.huji.ac.il"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics and Biotechnology, The Hebrew University-Hadassah Medical School, Jerusalem, Israel. idoerg@cc.huji.ac.il","institution_ids":["https://openalex.org/I197251160","https://openalex.org/I2799899409"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002148475","display_name":"Tommy Kaplan","orcid":"https://orcid.org/0000-0002-1892-5461","observed_orcids":["https://orcid.org/0000-0002-1892-5461"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"T Kaplan","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5027892876","display_name":"Hanah Margalit","orcid":"https://orcid.org/0000-0002-2274-7784","observed_orcids":["https://orcid.org/0000-0002-2274-7784"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"H Margalit","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.0794,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.92708333,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":88,"max":93},"biblio":{"volume":"8","issue":null,"first_page":"162","last_page":"70"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9688000082969666,"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":0.9688000082969666,"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":0.02500000037252903,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.002099999925121665,"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/stairs","display_name":"stairs","score":0.8709999918937683},{"id":"https://openalex.org/keywords/sequence-dissimilarity","display_name":"sequence dissimilarity","score":0.8640000224113464},{"id":"https://openalex.org/keywords/protein-fold-conservation","display_name":"protein fold conservation","score":0.628000020980835},{"id":"https://openalex.org/keywords/amino-acid-sequence-conservation","display_name":"amino acid conservation","score":0.7289999723434448},{"id":"https://openalex.org/keywords/protein-structure-function-relationship","display_name":"protein structure-function relationship","score":0.3919999897480011},{"id":"https://openalex.org/keywords/buried-residues","display_name":"buried residues","score":0.6840000152587891},{"id":"https://openalex.org/keywords/amino-acid-composition","display_name":"amino acid composition","score":0.7369999885559082},{"id":"https://openalex.org/keywords/protein-families","display_name":"protein families","score":0.6119999885559082}],"concepts":[{"id":"https://openalex.org/C2777295749","wikidata":"https://www.wikidata.org/wiki/Q12511","display_name":"Stairs","level":2,"score":0.6197754144668579},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.5366437435150146},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5202516317367554},{"id":"https://openalex.org/C199216141","wikidata":"https://www.wikidata.org/wiki/Q4995178","display_name":"Conserved sequence","level":4,"score":0.5092777013778687},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.500856876373291},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.4579249322414398},{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.4295644462108612},{"id":"https://openalex.org/C92825506","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Protein primary structure","level":4,"score":0.42804497480392456},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.4149530231952667},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3135336935520172},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2955540418624878},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10745018720626831},{"id":"https://openalex.org/C147176958","wikidata":"https://www.wikidata.org/wiki/Q77590","display_name":"Civil engineering","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"pmid:10977077","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/10977077","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,"listed_in":[],"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":"Proceedings. International Conference on Intelligent Systems for Molecular Biology","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.522.9882","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.522.9882","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://www.aaai.org/Papers/ISMB/2000/ISMB00-017.pdf","raw_type":"text"},{"id":"mag:2114496049","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/10977077","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,"listed_in":[],"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":null,"is_accepted":false,"is_published":false,"raw_source_name":"PubMed","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W1509269256","https://openalex.org/W1966041739","https://openalex.org/W1970492002","https://openalex.org/W1971187927","https://openalex.org/W1972216879","https://openalex.org/W1977538576","https://openalex.org/W1979147581","https://openalex.org/W1984874903","https://openalex.org/W2010260387","https://openalex.org/W2022058405","https://openalex.org/W2023790301","https://openalex.org/W2023925702","https://openalex.org/W2028597865","https://openalex.org/W2045777307","https://openalex.org/W2053281575","https://openalex.org/W2055429964","https://openalex.org/W2058336694","https://openalex.org/W2068265376","https://openalex.org/W2077235131","https://openalex.org/W2087064593","https://openalex.org/W2089088187","https://openalex.org/W2101220662","https://openalex.org/W2111909811","https://openalex.org/W2134571902","https://openalex.org/W2158714788","https://openalex.org/W2168211076"],"related_works":["https://openalex.org/W1604980477","https://openalex.org/W2566072438","https://openalex.org/W7096344621","https://openalex.org/W2053526761","https://openalex.org/W7099798365","https://openalex.org/W1980777635","https://openalex.org/W2170672962","https://openalex.org/W2076264578","https://openalex.org/W1977538576","https://openalex.org/W2279605073"],"abstract_inverted_index":{"Sequence":[0],"comparison":[1],"of":[2,14,21,31,67,77,90,104,116,123,158,183,192],"proteins":[3,24],"that":[4,80,131,146],"adopt":[5],"the":[6,91,101,105,124,176,190,193],"same":[7],"fold":[8],"has":[9,97],"revealed":[10],"a":[11,27,74,154],"large":[12],"degree":[13],"sequence":[15],"variation.":[16],"There":[17],"are":[18,81,126,147,161,172],"many":[19],"pairs":[20,79],"structurally":[22,35,82,94],"similar":[23,83],"with":[25,149],"only":[26,127],"very":[28],"low":[29],"percentage":[30],"identical":[32,45],"residues":[33,46,92],"at":[34,93],"aligned":[36,95],"positions.":[37],"It":[38],"is":[39],"not":[40],"clear":[41],"whether":[42],"these":[43,159,184],"few":[44],"have":[47,135],"been":[48,98,136],"conserved":[49,114,141,178],"just":[50],"by":[51],"coincidence,":[52],"or":[53],"due":[54],"to":[55],"their":[56,132,164],"structural":[57],"and/or":[58],"functional":[59],"role":[60],"The":[61,87,138],"current":[62],"study":[63],"focuses":[64],"on":[65],"characterization":[66],"STructurally":[68],"Aligned":[69],"Identical":[70],"ResidueS":[71],"(STAIRS)":[72],"in":[73,189],"data":[75],"set":[76],"protein":[78,102,150,165],"but":[84],"sequentially":[85],"dissimilar.":[86],"conservation":[88],"pattern":[89],"positions":[96,115],"characterized":[99],"within":[100,163],"families":[103],"two":[106],"pair":[107],"members,":[108],"and":[109,112,152,170,196],"mutually":[110,139,177],"highly":[111,140],"weakly":[113],"STAIRS":[117,125,142,160,185],"could":[118],"be":[119],"identified":[120],"About":[121],"40%":[122],"moderately":[128],"conserved,":[129],"suggesting":[130],"maintenance":[133],"may":[134],"coincidental.":[137],"show":[143],"distinct":[144],"features":[145],"associated":[148],"structure":[151,195],"function:":[153],"relatively":[155],"high":[156],"fraction":[157],"buried":[162],"structures.":[166],"Glycine,":[167],"cysteine,":[168],"histidine,":[169],"tryptophan":[171],"significantly":[173],"over-represented":[174],"among":[175],"STAIRS.":[179],"A":[180],"detailed":[181],"survey":[182],"reveals":[186],"residue-specific":[187],"roles":[188],"determination":[191],"protein's":[194],"function.":[197]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}