{"id":"https://openalex.org/W2036343468","doi":"https://doi.org/10.1145/1229390.1229402","title":"Protein CorreLogo","display_name":"Protein CorreLogo","publication_year":2007,"publication_date":"2007-04-15","ids":{"openalex":"https://openalex.org/W2036343468","doi":"https://doi.org/10.1145/1229390.1229402","mag":"2036343468"},"language":"en","primary_location":{"id":"doi:10.1145/1229390.1229402","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1229390.1229402","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the twelfth international conference on 3D web technology","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5113782413","display_name":"Scooter Willis","orcid":null},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Scooter Willis","raw_affiliation_strings":["University of Florida","[University of Florida]"],"affiliations":[{"raw_affiliation_string":"University of Florida","institution_ids":["https://openalex.org/I33213144"]},{"raw_affiliation_string":"[University of Florida]","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5113782413"],"corresponding_institution_ids":["https://openalex.org/I33213144"],"apc_list":null,"apc_paid":null,"fwci":0.1309,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.517519,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"71","last_page":"80"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9950000047683716,"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":0.9950000047683716,"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":0.9937000274658203,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.993399977684021,"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/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.9414664506912231},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.8018914461135864},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6155677437782288},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.5043092966079712},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.4999213218688965},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.46262621879577637},{"id":"https://openalex.org/keywords/protein-family","display_name":"Protein family","score":0.44122812151908875},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.43480274081230164},{"id":"https://openalex.org/keywords/protein-domain","display_name":"Protein domain","score":0.41036832332611084},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.408115953207016},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.35297197103500366},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3453225791454315},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.32007908821105957},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.3127749562263489},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23935332894325256},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.17950960993766785},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.17056235671043396}],"concepts":[{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.9414664506912231},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.8018914461135864},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6155677437782288},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.5043092966079712},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4999213218688965},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.46262621879577637},{"id":"https://openalex.org/C171897839","wikidata":"https://www.wikidata.org/wiki/Q417841","display_name":"Protein family","level":3,"score":0.44122812151908875},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.43480274081230164},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.41036832332611084},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.408115953207016},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35297197103500366},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3453225791454315},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.32007908821105957},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.3127749562263489},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23935332894325256},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17950960993766785},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.17056235671043396},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/1229390.1229402","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1229390.1229402","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the twelfth international conference on 3D web technology","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W1546341583","https://openalex.org/W1892578325","https://openalex.org/W1976141176","https://openalex.org/W1995875735","https://openalex.org/W2041877620","https://openalex.org/W2068600611","https://openalex.org/W2092906794","https://openalex.org/W2108317211","https://openalex.org/W2110612888","https://openalex.org/W2114568928","https://openalex.org/W2115217810","https://openalex.org/W2120549641","https://openalex.org/W2127230663","https://openalex.org/W2131848438","https://openalex.org/W2132109794","https://openalex.org/W2132661997","https://openalex.org/W2135500937","https://openalex.org/W2141885858","https://openalex.org/W2155644389","https://openalex.org/W2801179766","https://openalex.org/W4206694472"],"related_works":["https://openalex.org/W4206949911","https://openalex.org/W3171039768","https://openalex.org/W3016550772","https://openalex.org/W2593264178","https://openalex.org/W2185518315","https://openalex.org/W2602307348","https://openalex.org/W2039679484","https://openalex.org/W2155159626","https://openalex.org/W2181530468","https://openalex.org/W2560155458"],"abstract_inverted_index":{"To":[0],"understand":[1],"the":[2,21,27,51,54,88,112,156,170,173,199,225,240,244,250,254,262,291,296,308,334,379,389],"functional":[3,97],"elements":[4],"of":[5,23,48,56,65,70,149,169,228,246,257,278,311,371,388],"a":[6,105,138,177,189,218,301],"protein":[7,29,57,143,150,153,164,171,200,251,286,322,347],"structure":[8,30,175,180,382],"biologists":[9],"use":[10],"domain":[11],"specific":[12,44,96],"3D":[13,73,107,190],"viewers":[14,38,84],"(PDB)":[15],"that":[16,25,122,294,326,352,374],"are":[17,123,185,215,288,337,353,375,384],"written":[18,41,92],"to":[19,42,50,77,93,104,131,187,204,223,359],"process":[20],"coordinates":[22],"atoms":[24],"represent":[26,224],"solved":[28],"using":[31,210,317],"X-Ray":[32],"crystallography":[33],"or":[34,45],"NMR.":[35],"The":[36,75,194,266],"PDB":[37,83,113,119,179,264,397],"have":[39,159],"been":[40],"capture":[43],"common":[46],"features":[47],"interest":[49,71],"researcher.":[52],"With":[53],"explosion":[55],"sequence":[58,196,242],"data":[59,66,80,114,128,280],"comparative":[60],"studies":[61],"and":[62,99,129,155,181,253,282,395],"statistical":[63,79],"analysis":[64],"can":[67,400],"indicate":[68],"regions":[69,162,248],"in":[72,249,290,355,376,378],"models.":[74],"ability":[76],"integrate":[78],"into":[81],"existing":[82],"is":[85,90,115,202,270,331],"difficult":[86],"because":[87],"software":[89],"typically":[91],"accomplish":[94],"very":[95],"goals":[98],"does":[100],"not":[101],"support":[102],"exporting":[103],"standard":[106],"format.":[108],"In":[109],"this":[110],"paper,":[111],"shown":[116],"as":[117,137,217],"X3D":[118,141,273,303,393,396],"ribbon":[120,305,398],"models":[121,394,399],"augmented":[124],"with":[125,220,300,324,349],"statistically":[126],"significant":[127,364],"compared":[130],"an":[132],"Information-Rich":[133],"Virtual":[134],"Environment":[135],"represented":[136],"Protein":[139,191,267,297],"CorreLogo":[140,192,268,298,392],"model.A":[142],"family":[144,201,252],"(Pfam)":[145],"represents":[146],"multiple":[147,195],"alignments":[148],"sequences":[151],"where":[152,333],"domains":[154,351],"tertiary":[157,174,390],"structures":[158],"evolutionary":[160],"conserved":[161],"representing":[163],"function.":[165],"Various":[166],"information":[167,366],"properties":[168,227],"family,":[172,323,348],"from":[176,198],"sequence's":[178],"ligand":[182,341],"binding":[183,342],"pockets":[184],"combined":[186],"create":[188],"model.":[193],"alignment":[197],"used":[203],"detect":[205],"co-evolving":[206,230,284,313,335],"amino":[207,231,259,314,372],"acid":[208,232,260,315],"pairs":[209,214,316,336,370],"mutual":[211,318,365],"information.":[212,319],"Co-evolving":[213],"indicated":[216],"column":[219],"color":[221],"coding":[222],"physio-chemical":[226],"each":[229,237,258],"combination.":[233],"Additional":[234],"visualizations":[235],"along":[236],"axis":[238],"include":[239],"2D":[241],"logo,":[243],"degree":[245],"insert":[247],"surface":[255],"accessibility":[256],"for":[261,340],"referenced":[263],"sequence.":[265],"model":[269,299,306],"based":[271],"on":[272,385],"(VRML)":[274],"facilitating":[275],"immersive":[276],"viewing":[277],"complex":[279],"relationships":[281],"detected":[283],"pairs.Two":[285],"families":[287],"presented":[289],"results":[292],"section":[293],"compare":[295],"representative":[302],"RDB":[304],"showing":[307],"structural":[309],"significance":[310],"predicted":[312],"One":[320],"example":[321,346],"proteins":[325],"bind":[327],"cyclic":[328],"nucleotides":[329],"(PF00027.18),":[330],"given":[332],"potential":[338],"markers":[339],"pocket":[343],"regions.":[344],"Another":[345],"SH3":[350],"involved":[354],"signal":[356],"transduction":[357],"related":[358],"cytoskeletal":[360],"organization":[361],"(PF00018.16),":[362],"shows":[363],"occurring":[367],"between":[368],"two":[369],"acids":[373],"contact":[377],"intertwined":[380],"dimer":[381],"but":[383],"opposite":[386],"ends":[387],"structure.Protein":[391],"be":[401],"found":[402],"at":[403],"http://www.proteinx3d.com":[404]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-06-24T00:00:00"}
