{"id":"https://openalex.org/W2053564677","doi":null,"title":"Towards an understanding of protein-protein interaction network hierarchies. Analysis of DnaN (\u03b2)-binding peptide motifs in members of protein families interacting with the eubacterial processivity clamp, the \u03b2 subunit of DNA Polymerase III","display_name":"Towards an understanding of protein-protein interaction network hierarchies. Analysis of DnaN (\u03b2)-binding peptide motifs in members of protein families interacting with the eubacterial processivity clamp, the \u03b2 subunit of DNA Polymerase III","publication_year":2003,"publication_date":"2003-01-01","ids":{"openalex":"https://openalex.org/W2053564677","mag":"2053564677"},"language":"en","primary_location":{"id":"mag:2053564677","doi":null,"is_oa":false,"landing_page_url":"http://crpit.com/confpapers/CRPITV19Dalrymple.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306417749","display_name":"Asia-Pacific Bioinformatics Conference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":"Asia-Pacific Bioinformatics Conference","raw_type":null},"volume":null,"type":"conference-paper","is_traditional":true,"indexed_in":[],"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/A5030549341","display_name":"Brian P. Dalrymple","orcid":"https://orcid.org/0000-0003-3891-5233","observed_orcids":["https://orcid.org/0000-0003-3891-5233"]},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Brian P. Dalrymple","raw_affiliation_strings":["CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#"],"raw_orcid":"https://orcid.org/0000-0003-3891-5233","affiliations":[{"raw_affiliation_string":"CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#","institution_ids":["https://openalex.org/I1292875679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030460723","display_name":"Gene L. Wijffels","orcid":"https://orcid.org/0000-0001-5552-4416","observed_orcids":["https://orcid.org/0000-0001-5552-4416"]},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Gene Wijffels","raw_affiliation_strings":["CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#"],"raw_orcid":"https://orcid.org/0000-0001-5552-4416","affiliations":[{"raw_affiliation_string":"CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#","institution_ids":["https://openalex.org/I1292875679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108448581","display_name":"Kritaya Kongsuwan","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Kritaya Kongsuwan","raw_affiliation_strings":["CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CSIRO Livestock Industries, 120 Meiers Road, Indooroopilly, QLD 4068, Australia#TAB#","institution_ids":["https://openalex.org/I1292875679"]}]},{"author_position":"last","author":{"id":null,"display_name":"Phil Jennings","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Phil Jennings","raw_affiliation_strings":["Peptech Ltd, 1/35-41 Waterloo Road, North Ryde, NSW 1670, Australia#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Peptech Ltd, 1/35-41 Waterloo Road, North Ryde, NSW 1670, Australia#TAB#","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":3.8901,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.92591316,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"153","last_page":"162"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5776000022888184,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5776000022888184,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.31130000948905945,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10123","display_name":"DNA Repair Mechanisms","score":0.07400000095367432,"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/dnan","display_name":"DNAN","score":0.7049999833106995},{"id":"https://openalex.org/keywords/protein-protein-interaction-motifs","display_name":"protein-protein interaction motifs","score":0.7699999809265137},{"id":"https://openalex.org/keywords/polc","display_name":"PolC","score":0.8339999914169312},{"id":"https://openalex.org/keywords/dinb","display_name":"DinB","score":0.9620000123977661},{"id":"https://openalex.org/keywords/umuc","display_name":"UmuC","score":0.9409999847412109},{"id":"https://openalex.org/keywords/dnae","display_name":"dnaE","score":0.9589999914169312},{"id":"https://openalex.org/keywords/muts","display_name":"MutS","score":0.8259999752044678},{"id":"https://openalex.org/keywords/protein-family-evolution","display_name":"protein family evolution","score":0.6079999804496765},{"id":"https://openalex.org/keywords/eubacteria","display_name":"eubacteria","score":0.7680000066757202}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6885371208190918},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5761241912841797},{"id":"https://openalex.org/C45197812","wikidata":"https://www.wikidata.org/wiki/Q24787539","display_name":"Pentapeptide repeat","level":3,"score":0.5143778920173645},{"id":"https://openalex.org/C171897839","wikidata":"https://www.wikidata.org/wiki/Q417841","display_name":"Protein family","level":3,"score":0.48664340376853943},{"id":"https://openalex.org/C2756471","wikidata":"https://www.wikidata.org/wiki/Q206286","display_name":"DNA polymerase","level":3,"score":0.47940394282341003},{"id":"https://openalex.org/C104292427","wikidata":"https://www.wikidata.org/wiki/Q899781","display_name":"Protein subunit","level":3,"score":0.4712681472301483},{"id":"https://openalex.org/C82381507","wikidata":"https://www.wikidata.org/wiki/Q416878","display_name":"Polymerase","level":3,"score":0.41526028513908386},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.38818490505218506},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3604217767715454},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.23283201456069946},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1683245599269867},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.1434045135974884}],"mesh":[],"locations_count":1,"locations":[{"id":"mag:2053564677","doi":null,"is_oa":false,"landing_page_url":"http://crpit.com/confpapers/CRPITV19Dalrymple.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306417749","display_name":"Asia-Pacific Bioinformatics Conference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":"Asia-Pacific Bioinformatics Conference","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W47123523","https://openalex.org/W1483862752","https://openalex.org/W1510371408","https://openalex.org/W1577577942","https://openalex.org/W1585683443","https://openalex.org/W1592870802","https://openalex.org/W1990577240","https://openalex.org/W1995505071","https://openalex.org/W2008549086","https://openalex.org/W2017721665","https://openalex.org/W2020271217","https://openalex.org/W2022910177","https://openalex.org/W2034203486","https://openalex.org/W2038599420","https://openalex.org/W2059331654","https://openalex.org/W2065014822","https://openalex.org/W2087752365","https://openalex.org/W2093687299","https://openalex.org/W2093862172","https://openalex.org/W2121844676","https://openalex.org/W2126915623","https://openalex.org/W2128960998","https://openalex.org/W2132978503","https://openalex.org/W2140962015","https://openalex.org/W2147557127","https://openalex.org/W2171046836","https://openalex.org/W2401494917","https://openalex.org/W2746255352"],"related_works":["https://openalex.org/W2132978503","https://openalex.org/W7162947874","https://openalex.org/W1996938470","https://openalex.org/W4246665723","https://openalex.org/W1964736292","https://openalex.org/W7026837584","https://openalex.org/W2927622794","https://openalex.org/W1983703472","https://openalex.org/W7096266269","https://openalex.org/W7099169299"],"abstract_inverted_index":{"The":[0,41],"consensus":[1],"pentapeptide":[2],"QL[SD]LF":[3],"is":[4],"a":[5,12,115,150,168,185],"major":[6],"component":[7],"in":[8,47,71,160,184],"the":[9,19,33,38,48,67,72,89,92,161,196],"interaction":[10],"of":[11,14,16,26,32,43,45,88,94,98,103,105,117,147,153,155,163,167,171,173],"number":[13,116],"families":[15,54,77,90,109],"proteins":[17,126,134,157,172],"with":[18,127,135],"eubacterial":[20],"DNA-clamp":[21],"protein,":[22],"DnaN":[23],"(the":[24],"\u03b2-subunit":[25],"DNA":[27],"Polymerase":[28],"III":[29],"holoenzyme).":[30],"Rankings":[31],"motifs":[34,46,70,131,138],"were":[35,55,78],"established":[36],"using":[37],"program":[39],"MEME.":[40],"distribution":[42],"ranking":[44,130],"PolC,":[49],"DinB2":[50],"and":[51,74,110,124,132],"UmuC":[52],"protein":[53,76,108],"shown":[56,79],"to":[57,61,66,80,84],"be":[58,81],"significantly":[59,82,128,136],"skewed":[60,83],"higher":[62],"rankings":[63],"(ie":[64],"closer":[65],"consensus),":[68],"whilst":[69],"DinB1":[73],"DnaE2":[75],"lower":[85,129,197],"rankings.":[86],"Sub-division":[87],"on":[91],"basis":[93],"domain":[95],"architecture,":[96],"clustering":[97],"sequences,":[99],"presence":[100],"or":[101],"absence":[102],"members":[104],"other":[106,164],"DnaN-binding":[107,156,181,191],"phylogenetic":[111],"positions,":[112],"has":[113],"identified":[114],"relationships.":[118],"Species":[119],"containing":[120,189],"PolC":[121],"have":[122,149,178],"DnaE1":[123],"DinB1.1":[125],"MutS1":[133],"higher-ranking":[137],"than":[139],"average.":[140],"These":[141],"observations":[142],"suggest":[143],"that":[144,159],"this":[145],"group":[146],"eubacteria":[148],"different":[151],"hierarchy":[152],"interactions":[154],"from":[158],"majority":[162],"species.":[165],"Members":[166],"new":[169,187],"family":[170,188],"unknown":[174],"function,":[175],"Duf72,":[176],"also":[177],"high-ranking":[179],"putative":[180,190],"motifs.":[182],"Motifs":[183],"second":[186],"sites,":[192],"DinB3,":[193],"rank":[194],"at":[195],"end.":[198]},"counts_by_year":[],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}
