{"id":"https://openalex.org/W4376131123","doi":"https://doi.org/10.1093/database/baad010","title":"CaviDB: a database of cavities and their features in the structural and conformational space of proteins","display_name":"CaviDB: a database of cavities and their features in the structural and conformational space of proteins","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W4376131123","doi":"https://doi.org/10.1093/database/baad010","pmid":"https://pubmed.ncbi.nlm.nih.gov/37162753"},"language":"en","primary_location":{"id":"doi:10.1093/database/baad010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad010","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad010/50267555/baad010.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad010/50267555/baad010.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046050320","display_name":"Ana Julia Velez Rueda","orcid":"https://orcid.org/0000-0001-7902-8687"},"institutions":[{"id":"https://openalex.org/I138504249","display_name":"National University of Quilmes","ror":"https://ror.org/01r53hz59","country_code":"AR","type":"education","lineage":["https://openalex.org/I138504249"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Ana Julia Velez Rueda","raw_affiliation_strings":["Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina"],"affiliations":[{"raw_affiliation_string":"Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina","institution_ids":["https://openalex.org/I138504249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036151397","display_name":"Franco Leonardo Bulgarelli","orcid":"https://orcid.org/0000-0001-8195-1833"},"institutions":[{"id":"https://openalex.org/I138504249","display_name":"National University of Quilmes","ror":"https://ror.org/01r53hz59","country_code":"AR","type":"education","lineage":["https://openalex.org/I138504249"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Franco Leonardo Bulgarelli","raw_affiliation_strings":["Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina"],"affiliations":[{"raw_affiliation_string":"Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina","institution_ids":["https://openalex.org/I138504249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083072847","display_name":"Nicol\u00e1s Pal\u00f3poli","orcid":"https://orcid.org/0000-0001-7925-6436"},"institutions":[{"id":"https://openalex.org/I138504249","display_name":"National University of Quilmes","ror":"https://ror.org/01r53hz59","country_code":"AR","type":"education","lineage":["https://openalex.org/I138504249"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Nicol\u00e1s Palopoli","raw_affiliation_strings":["Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina"],"affiliations":[{"raw_affiliation_string":"Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina","institution_ids":["https://openalex.org/I138504249"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037751052","display_name":"Gustavo Parisi","orcid":"https://orcid.org/0000-0001-7444-1624"},"institutions":[{"id":"https://openalex.org/I138504249","display_name":"National University of Quilmes","ror":"https://ror.org/01r53hz59","country_code":"AR","type":"education","lineage":["https://openalex.org/I138504249"]}],"countries":["AR"],"is_corresponding":true,"raw_author_name":"Gustavo Parisi","raw_affiliation_strings":["Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina"],"affiliations":[{"raw_affiliation_string":"Departamento de Ciencia y Tecnologia, Universidad Nacional de Quilmes , Roque Saenz Pena 182, Bernal B1876BXD, Argentina","institution_ids":["https://openalex.org/I138504249"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5037751052"],"corresponding_institution_ids":["https://openalex.org/I138504249"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":1.5662,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.85293239,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"2023","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9988999962806702,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9988999962806702,"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"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9980000257492065,"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/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9958000183105469,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.6557210683822632},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5726527571678162},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.55440753698349},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.5465625524520874},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5309516787528992},{"id":"https://openalex.org/keywords/surface-protein","display_name":"Surface protein","score":0.5055909156799316},{"id":"https://openalex.org/keywords/protein-structure-database","display_name":"Protein structure database","score":0.47189176082611084},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45175328850746155},{"id":"https://openalex.org/keywords/structural-bioinformatics","display_name":"Structural bioinformatics","score":0.4260825514793396},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.4170113205909729},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.37399083375930786},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3007347583770752},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.16437047719955444},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.1376647651195526},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10019734501838684}],"concepts":[{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.6557210683822632},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5726527571678162},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.55440753698349},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.5465625524520874},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5309516787528992},{"id":"https://openalex.org/C3019232848","wikidata":"https://www.wikidata.org/wiki/Q29548","display_name":"Surface protein","level":2,"score":0.5055909156799316},{"id":"https://openalex.org/C136475424","wikidata":"https://www.wikidata.org/wiki/Q7251500","display_name":"Protein structure database","level":4,"score":0.47189176082611084},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45175328850746155},{"id":"https://openalex.org/C69131567","wikidata":"https://www.wikidata.org/wiki/Q2068215","display_name":"Structural bioinformatics","level":3,"score":0.4260825514793396},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.4170113205909729},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.37399083375930786},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3007347583770752},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.16437047719955444},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.1376647651195526},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10019734501838684},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","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":[{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baad010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad010","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad010/50267555/baad010.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:37162753","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37162753","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":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10171230","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10171230","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10171230/pdf/baad010.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baad010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baad010","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baad010/50267555/baad010.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1399868882","display_name":null,"funder_award_id":"PUNQ 1004/11","funder_id":"https://openalex.org/F4320325873","funder_display_name":"Universidad Nacional de Quilmes"},{"id":"https://openalex.org/G1798230531","display_name":null,"funder_award_id":"unknown","funder_id":"https://openalex.org/F4320321594","funder_display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas"},{"id":"https://openalex.org/G3332673900","display_name":null,"funder_award_id":"AWS-CONICET INNOVA 2021","funder_id":"https://openalex.org/F4320321594","funder_display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas"},{"id":"https://openalex.org/G3892870697","display_name":null,"funder_award_id":"ANPCyT","funder_id":"https://openalex.org/F4320321594","funder_display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas"},{"id":"https://openalex.org/G4119790512","display_name":null,"funder_award_id":"PICT-2014-3430, PICT-2013-0232","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G4408481799","display_name":null,"funder_award_id":"PUNQ 1004/11","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G5244985577","display_name":null,"funder_award_id":"PICT-2014-3430","funder_id":"https://openalex.org/F4320325873","funder_display_name":"Universidad Nacional de Quilmes"},{"id":"https://openalex.org/G6139128340","display_name":null,"funder_award_id":"PICT-2013-0232","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G6658146316","display_name":null,"funder_award_id":"PICT-2014-3430","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G7378882120","display_name":null,"funder_award_id":"CONICET","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G8603467370","display_name":null,"funder_award_id":"PICT-","funder_id":"https://openalex.org/F4320334832","funder_display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica"},{"id":"https://openalex.org/G8816116920","display_name":null,"funder_award_id":"1004/11","funder_id":"https://openalex.org/F4320321594","funder_display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas"}],"funders":[{"id":"https://openalex.org/F4320321594","display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas","ror":"https://ror.org/03cqe8w59"},{"id":"https://openalex.org/F4320325873","display_name":"Universidad Nacional de Quilmes","ror":"https://ror.org/01r53hz59"},{"id":"https://openalex.org/F4320334832","display_name":"Agencia Nacional de Promoci\u00f3n Cient\u00edfica y Tecnol\u00f3gica","ror":"https://ror.org/03stxzb56"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4376131123.pdf"},"referenced_works_count":65,"referenced_works":["https://openalex.org/W1482674388","https://openalex.org/W1585634379","https://openalex.org/W1969868335","https://openalex.org/W1973788406","https://openalex.org/W1980027181","https://openalex.org/W1983815352","https://openalex.org/W1998966098","https://openalex.org/W2008609697","https://openalex.org/W2015319790","https://openalex.org/W2019971393","https://openalex.org/W2030860488","https://openalex.org/W2033321151","https://openalex.org/W2033536765","https://openalex.org/W2043886357","https://openalex.org/W2054534830","https://openalex.org/W2063822856","https://openalex.org/W2084938226","https://openalex.org/W2088792390","https://openalex.org/W2088900329","https://openalex.org/W2091664813","https://openalex.org/W2105902442","https://openalex.org/W2114288212","https://openalex.org/W2123440974","https://openalex.org/W2126103104","https://openalex.org/W2128312954","https://openalex.org/W2130479394","https://openalex.org/W2137245183","https://openalex.org/W2137387674","https://openalex.org/W2140407975","https://openalex.org/W2146660498","https://openalex.org/W2146940292","https://openalex.org/W2152443870","https://openalex.org/W2152572188","https://openalex.org/W2156335429","https://openalex.org/W2162388472","https://openalex.org/W2163095326","https://openalex.org/W2164088236","https://openalex.org/W2170463736","https://openalex.org/W2224056471","https://openalex.org/W2241099034","https://openalex.org/W2315174892","https://openalex.org/W2330799739","https://openalex.org/W2343614482","https://openalex.org/W2472351724","https://openalex.org/W2568226856","https://openalex.org/W2590168536","https://openalex.org/W2611281850","https://openalex.org/W2771501655","https://openalex.org/W2793292346","https://openalex.org/W2794439554","https://openalex.org/W2802113520","https://openalex.org/W2902557437","https://openalex.org/W2978232173","https://openalex.org/W3024501576","https://openalex.org/W3080891759","https://openalex.org/W3177828909","https://openalex.org/W3185701646","https://openalex.org/W3211795435","https://openalex.org/W4220803310","https://openalex.org/W4220858409","https://openalex.org/W4225552973","https://openalex.org/W4255594044","https://openalex.org/W4285020367","https://openalex.org/W6635077098","https://openalex.org/W6807593253"],"related_works":["https://openalex.org/W2146442590","https://openalex.org/W3013234621","https://openalex.org/W2607853144","https://openalex.org/W4285340733","https://openalex.org/W4375844720","https://openalex.org/W2084743099","https://openalex.org/W2047036156","https://openalex.org/W2000589311","https://openalex.org/W2181530468","https://openalex.org/W1897312405"],"abstract_inverted_index":{"Proteins":[0],"are":[1,14,39],"the":[2,66,97,115,139,152,183,199],"structural,":[3],"functional":[4,82],"and":[5,19,28,33,57,81,144,173,206],"evolutionary":[6],"units":[7],"of":[8,36,45,55,68,99,117,122,136,151,170,182,185,202],"cells.":[9],"On":[10],"their":[11,58,145],"surface,":[12],"proteins":[13],"shaped":[15],"into":[16],"numerous":[17],"depressions":[18],"protrusions":[20],"that":[21,163],"provide":[22,159],"unique":[23,191],"microenvironments":[24],"for":[25,41,167,198],"ligand":[26],"binding":[27],"catalysis.":[29],"The":[30,133],"dynamics,":[31],"size":[32],"chemical":[34],"properties":[35,146],"these":[37],"cavities":[38,56,143],"essential":[40],"a":[42,52,160,179],"mechanistic":[43],"understanding":[44,181],"protein":[46,62,75,85,186],"function.":[47],"Here,":[48],"we":[49],"present":[50],"CaviDB,":[51],"novel":[53],"database":[54,162],"features":[59,76],"in":[60,86,102,204,208],"known":[61],"structures.":[63],"It":[64],"integrates":[65],"results":[67],"commonly":[69],"used":[70,166],"cavity":[71],"detection":[72],"software":[73],"with":[74],"derived":[77],"from":[78,147],"sequence,":[79],"structural":[80,134],"analyses.":[83],"Each":[84],"CaviDB":[87,137,154,193],"is":[88],"linked":[89],"to":[90,129,141,158,178],"its":[91,190],"corresponding":[92],"conformers,":[93],"which":[94,123],"also":[95,176],"facilitates":[96],"study":[98],"conformational":[100,149],"changes":[101],"cavities.":[103],"Our":[104],"initial":[105],"release":[106],"includes":[107],"\u223c927":[108],"773":[109],"distinct":[110],"proteins,":[111],"as":[112,114],"well":[113],"characterization":[116],"36":[118],"136":[119],"869":[120],"cavities,":[121],"1":[124],"147":[125],"034":[126],"were":[127],"predicted":[128],"be":[130,165],"drug":[131,171],"targets.":[132],"focus":[135],"provides":[138],"ability":[140],"compare":[142],"different":[148],"states":[150],"protein.":[153],"not":[155],"only":[156],"aims":[157],"comprehensive":[161],"can":[164],"various":[168],"aspects":[169],"design":[172],"discovery":[174],"but":[175],"contributes":[177],"better":[180],"fundamentals":[184],"structure-function":[187],"relationships.":[188],"With":[189],"approach,":[192],"represents":[194],"an":[195],"indispensable":[196],"resource":[197],"large":[200],"community":[201],"bioinformaticians":[203],"particular":[205],"biologists":[207],"general.":[209],"Database":[210],"URL":[211],"https://www.cavidb.org.":[212]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3}],"updated_date":"2026-04-15T08:11:43.952461","created_date":"2025-10-10T00:00:00"}
