{"id":"https://openalex.org/W4252827053","doi":"https://doi.org/10.1093/bioinformatics/btm018","title":"A simple shape characteristic of protein\u2013protein recognition","display_name":"A simple shape characteristic of protein\u2013protein recognition","publication_year":2007,"publication_date":"2007-01-31","ids":{"openalex":"https://openalex.org/W4252827053","doi":"https://doi.org/10.1093/bioinformatics/btm018"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btm018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/7/789/49822260/bioinformatics_23_7_789.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/23/7/789/49822260/bioinformatics_23_7_789.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032307709","display_name":"George Nicola","orcid":"https://orcid.org/0000-0001-5176-1748"},"institutions":[{"id":"https://openalex.org/I123431417","display_name":"Scripps Research Institute","ror":"https://ror.org/02dxx6824","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I123431417"]},{"id":"https://openalex.org/I146416000","display_name":"University of Kansas","ror":"https://ror.org/001tmjg57","country_code":"US","type":"education","lineage":["https://openalex.org/I146416000"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"George Nicola","raw_affiliation_strings":["1 Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Rd, La Jolla, CA 92037, USA and 2Center for Bioinformatics and Department of Molecular Biosciences, The University of Kansas, 2030 Becker Drive, Lawrence, KS 66047, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Rd, La Jolla, CA 92037, USA and 2Center for Bioinformatics and Department of Molecular Biosciences, The University of Kansas, 2030 Becker Drive, Lawrence, KS 66047, USA","institution_ids":["https://openalex.org/I123431417","https://openalex.org/I146416000"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013394507","display_name":"Ilya A. Vakser","orcid":"https://orcid.org/0000-0002-5743-2934"},"institutions":[{"id":"https://openalex.org/I146416000","display_name":"University of Kansas","ror":"https://ror.org/001tmjg57","country_code":"US","type":"education","lineage":["https://openalex.org/I146416000"]},{"id":"https://openalex.org/I123431417","display_name":"Scripps Research Institute","ror":"https://ror.org/02dxx6824","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I123431417"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ilya A. Vakser","raw_affiliation_strings":["1 Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Rd, La Jolla, CA 92037, USA and 2Center for Bioinformatics and Department of Molecular Biosciences, The University of Kansas, 2030 Becker Drive, Lawrence, KS 66047, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Rd, La Jolla, CA 92037, USA and 2Center for Bioinformatics and Department of Molecular Biosciences, The University of Kansas, 2030 Becker Drive, Lawrence, KS 66047, USA","institution_ids":["https://openalex.org/I123431417","https://openalex.org/I146416000"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5032307709"],"corresponding_institution_ids":["https://openalex.org/I123431417","https://openalex.org/I146416000"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.8824,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.85535654,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"23","issue":"7","first_page":"789","last_page":"792"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9991000294685364,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.989799976348877,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/surface-protein","display_name":"Surface protein","score":0.6407318115234375},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.5372756719589233},{"id":"https://openalex.org/keywords/plasma-protein-binding","display_name":"Plasma protein binding","score":0.41007113456726074},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.4037344455718994},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.38832101225852966},{"id":"https://openalex.org/keywords/biophysics","display_name":"Biophysics","score":0.34000182151794434},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28265291452407837},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.22418418526649475}],"concepts":[{"id":"https://openalex.org/C3019232848","wikidata":"https://www.wikidata.org/wiki/Q29548","display_name":"Surface protein","level":2,"score":0.6407318115234375},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.5372756719589233},{"id":"https://openalex.org/C51639874","wikidata":"https://www.wikidata.org/wiki/Q167149","display_name":"Plasma protein binding","level":2,"score":0.41007113456726074},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.4037344455718994},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.38832101225852966},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.34000182151794434},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28265291452407837},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.22418418526649475},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1093/bioinformatics/btm018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/7/789/49822260/bioinformatics_23_7_789.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btm018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/7/789/49822260/bioinformatics_23_7_789.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6466340437","display_name":null,"funder_award_id":"R01 GM074255","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8288036582","display_name":null,"funder_award_id":"NIH R01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4252827053.pdf","grobid_xml":"https://content.openalex.org/works/W4252827053.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1955046737","https://openalex.org/W1968922152","https://openalex.org/W1971528338","https://openalex.org/W1998063251","https://openalex.org/W2000383223","https://openalex.org/W2005707709","https://openalex.org/W2025120281","https://openalex.org/W2041673942","https://openalex.org/W2058369753","https://openalex.org/W2065283382","https://openalex.org/W2081702044","https://openalex.org/W2083654996","https://openalex.org/W2092360980","https://openalex.org/W2100543317","https://openalex.org/W2101362041","https://openalex.org/W2111387452","https://openalex.org/W2115410056","https://openalex.org/W2118459915","https://openalex.org/W2126311442","https://openalex.org/W2130300052","https://openalex.org/W2130479394","https://openalex.org/W2136525667","https://openalex.org/W2140407975","https://openalex.org/W2143185848","https://openalex.org/W2149432763","https://openalex.org/W2150444353","https://openalex.org/W2164391585","https://openalex.org/W2168239703","https://openalex.org/W2174242780","https://openalex.org/W4302414012"],"related_works":["https://openalex.org/W4210452139","https://openalex.org/W1839137323","https://openalex.org/W2147909568","https://openalex.org/W2469342451","https://openalex.org/W2167678837","https://openalex.org/W2746202791","https://openalex.org/W2328201459","https://openalex.org/W1987983260","https://openalex.org/W2159076012","https://openalex.org/W2044359120"],"abstract_inverted_index":{"Abstract":[0],"Motivation:":[1],"Observation":[2],"of":[3,15,21,32,38,46,54,71,89,99,103],"co-crystallized":[4,39],"protein\u2013protein":[5,9,22,40],"complexes":[6,41],"and":[7,85,106],"low-resolution":[8],"docking":[10],"studies":[11],"suggest":[12],"the":[13,29,44,47,51,62,69,74,79,100],"existence":[14],"a":[16,35],"binding-related":[17,87],"anisotropic":[18],"shape":[19,31],"characteristic":[20,88],"complexes.":[23],"Results:":[24],"Our":[25],"study":[26,80],"systematically":[27],"assessed":[28],"global":[30],"proteins":[33],"in":[34],"non-redundant":[36],"database":[37],"by":[42],"measuring":[43],"distance":[45],"surface":[48,76],"residues":[49,65],"to":[50,68],"protein's":[52],"center":[53,70],"mass.":[55],"The":[56,92],"results":[57,93],"show":[58],"that":[59],"on":[60],"average":[61],"binding":[63],"site":[64],"are":[66],"closer":[67],"mass":[72],"than":[73],"non-binding":[75],"residues.":[77],"Thus,":[78],"directly":[81],"detects":[82],"an":[83,95],"important":[84],"simple":[86],"protein":[90,104],"shapes.":[91],"provide":[94],"insight":[96],"into":[97],"one":[98],"fundamental":[101],"properties":[102],"structure":[105],"association.":[107],"Contact:":[108],"vakser@ku.edu":[109]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":4}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
