{"id":"https://openalex.org/W2104630883","doi":"https://doi.org/10.1142/s0219720010004835","title":"INTERACTION OF ANTIBODIES WITH AROMATIC LIGANDS: THE ROLE OF \u03c0-STACKING","display_name":"INTERACTION OF ANTIBODIES WITH AROMATIC LIGANDS: THE ROLE OF \u03c0-STACKING","publication_year":2010,"publication_date":"2010-03-23","ids":{"openalex":"https://openalex.org/W2104630883","doi":"https://doi.org/10.1142/s0219720010004835","mag":"2104630883","pmid":"https://pubmed.ncbi.nlm.nih.gov/20556857"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004835","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"journal-article","indexed_in":["crossref","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/A5035769853","display_name":"Vladimir K. Arzhanik","orcid":null},"institutions":[{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"VLADIMIR ARZHANIK","raw_affiliation_strings":["Lomonosov Moscow State University, Faculty of Bioengineering and Bioinformatics, LenGory, 1, b.73, Moscow, Russia, 119992, Russia"],"affiliations":[{"raw_affiliation_string":"Lomonosov Moscow State University, Faculty of Bioengineering and Bioinformatics, LenGory, 1, b.73, Moscow, Russia, 119992, Russia","institution_ids":["https://openalex.org/I19880235"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043896065","display_name":"Darya M. Svistunova","orcid":"https://orcid.org/0000-0002-8396-2672"},"institutions":[{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"DARJA SVISTUNOVA","raw_affiliation_strings":["Lomonosov Moscow State University, Kolmogorov Advanced Education and Scientific Center, 11, Kremenchugskaya, Moscow, Russia, 121357, Russia"],"affiliations":[{"raw_affiliation_string":"Lomonosov Moscow State University, Kolmogorov Advanced Education and Scientific Center, 11, Kremenchugskaya, Moscow, Russia, 121357, Russia","institution_ids":["https://openalex.org/I19880235"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042733313","display_name":"\u041e. \u0412. \u041a\u043e\u043b\u044f\u0441\u043d\u0438\u043a\u043e\u0432","orcid":"https://orcid.org/0000-0002-3850-5106"},"institutions":[{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"OLEG KOLIASNIKOV","raw_affiliation_strings":["Lomonosov Moscow State University, Kolmogorov Advanced Education and Scientific Center, 11, Kremenchugskaya, Moscow, Russia, 121357, Russia"],"affiliations":[{"raw_affiliation_string":"Lomonosov Moscow State University, Kolmogorov Advanced Education and Scientific Center, 11, Kremenchugskaya, Moscow, Russia, 121357, Russia","institution_ids":["https://openalex.org/I19880235"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077253606","display_name":"\u0410.\u041c. \u0415\u0433\u043e\u0440\u043e\u0432","orcid":"https://orcid.org/0000-0003-3531-6219"},"institutions":[{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"ALEXEY M. EGOROV","raw_affiliation_strings":["Lomonosov Moscow State University, Chemistry Department, Enzymology Division, LenGory, 1, b.11, Moscow, Russia, 119992, Russia"],"affiliations":[{"raw_affiliation_string":"Lomonosov Moscow State University, Chemistry Department, Enzymology Division, LenGory, 1, b.11, Moscow, Russia, 119992, Russia","institution_ids":["https://openalex.org/I19880235"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.4,"has_fulltext":true,"fulltext_origin":"ngrams","cited_by_count":12,"citation_normalized_percentile":{"value":0.666383,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":85,"max":86},"biblio":{"volume":"08","issue":"03","first_page":"471","last_page":"483"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9984,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9984,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.9937,"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/T11708","display_name":"Photochromic and Fluorescence Chemistry","score":0.9922,"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":[],"concepts":[{"id":"https://openalex.org/C33347731","wikidata":"https://www.wikidata.org/wiki/Q285210","display_name":"Stacking","level":2,"score":0.82983935},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.57658434},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.5629458},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.4832052},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4383097},{"id":"https://openalex.org/C21951064","wikidata":"https://www.wikidata.org/wiki/Q899212","display_name":"Combinatorial chemistry","level":1,"score":0.403689},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3918454},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.3318011},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27161497},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.2632658},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17450571}],"mesh":[{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000941","descriptor_name":"Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D006841","descriptor_name":"Hydrocarbons, Aromatic","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000941","descriptor_name":"Antigens","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006841","descriptor_name":"Hydrocarbons, Aromatic","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004835","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20556857","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,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Life below water","id":"https://metadata.un.org/sdg/14","score":0.42}],"grants":[],"datasets":[],"versions":[],"referenced_works_count":17,"referenced_works":["https://openalex.org/W1484092314","https://openalex.org/W1538857361","https://openalex.org/W1982679430","https://openalex.org/W2002333784","https://openalex.org/W2015045364","https://openalex.org/W2018708037","https://openalex.org/W2026395206","https://openalex.org/W2040405646","https://openalex.org/W2060720777","https://openalex.org/W2082507324","https://openalex.org/W2094726997","https://openalex.org/W2105556561","https://openalex.org/W2110036226","https://openalex.org/W2131781277","https://openalex.org/W2148404862","https://openalex.org/W2415412382","https://openalex.org/W4246441622"],"related_works":["https://openalex.org/W4376641153","https://openalex.org/W4302292679","https://openalex.org/W4295885776","https://openalex.org/W4250391473","https://openalex.org/W4241625287","https://openalex.org/W3045075405","https://openalex.org/W2956222435","https://openalex.org/W2050788868","https://openalex.org/W2035329725","https://openalex.org/W2031579480"],"abstract_inverted_index":{"Antibodies":[0,46],"are":[1],"responsible":[2],"for":[3,128],"antigen":[4],"recognition":[5],"in":[6,130],"vertebrate":[7],"organisms.":[8],"Practically":[9],"any":[10],"molecule":[11],"can":[12],"be":[13],"bound":[14,47],"by":[15,64],"antibodies.":[16,121],"In":[17,67],"this":[18,124],"work":[19],"structures":[20],"of":[21,24,39,73,84,93,99,102],"73":[22],"complexes":[23],"antibodies":[25],"with":[26,49,110,120],"small":[27,108],"antigens":[28],"were":[29],"taken":[30],"from":[31],"PDB":[32],"database":[33],"and":[34,60,62,135],"compared.":[35],"The":[36],"main":[37],"epitope":[38],"studied":[40],"ligands":[41,109],"was":[42,75,105,126],"an":[43],"aromatic":[44,65,71,82,94],"ring.":[45],"it":[48],"a":[50,97],"deep":[51],"cavity,":[52],"lying":[53],"between":[54],"complementary":[55],"determining":[56],"regions":[57],"(CDR)":[58],"H3":[59],"L3":[61],"formed":[63],"residues.":[66],"most":[68],"cases":[69],"the":[70,100],"ring":[72],"ligand":[74],"placed":[76],"parallel":[77],"to":[78],"one":[79],"or":[80],"two":[81],"sidechains":[83],"binding":[85],"site":[86],"at":[87],"3.5-4":[88],"Angstrom":[89],"distance.":[90],"This":[91],"disposition":[92],"rings":[95],"is":[96],"sign":[98],"presence":[101],"\u03c0-stacking.":[103],"It":[104],"found":[106],"that":[107],"aromatics":[111],"area":[112],"percentage":[113],">":[114],"36%":[115],"predominantly":[116],"form":[117],"\u03c0-stacking":[118],"interaction":[119,125],"Most":[122],"often":[123],"observed":[127],"residues":[129],"positions":[131],"H33,":[132],"H95,":[133],"L32":[134],"L93.":[136]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2104630883","counts_by_year":[{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2024-12-13T17:53:21.135062","created_date":"2016-06-24"}