{"id":"https://openalex.org/W1998417204","doi":"https://doi.org/10.1093/nar/gkt509","title":"VLDP web server: a powerful geometric tool for analysing protein structures in their environment","display_name":"VLDP web server: a powerful geometric tool for analysing protein structures in their environment","publication_year":2013,"publication_date":"2013-06-11","ids":{"openalex":"https://openalex.org/W1998417204","doi":"https://doi.org/10.1093/nar/gkt509","mag":"1998417204","pmid":"https://pubmed.ncbi.nlm.nih.gov/23761450"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkt509","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt509","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W373/3881120/gkt509.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","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/nar/article-pdf/41/W1/W373/3881120/gkt509.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5013295087","display_name":"J\u00e9r\u00e9my Esque","orcid":"https://orcid.org/0000-0002-5786-848X"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I4210091780","display_name":"Institut National de la Transfusion Sanguine","ror":"https://ror.org/00fh58138","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210091780"]},{"id":"https://openalex.org/I4210116171","display_name":"3M (France)","ror":"https://ror.org/02f12sz84","country_code":"FR","type":"company","lineage":["https://openalex.org/I1340755506","https://openalex.org/I4210116171"]},{"id":"https://openalex.org/I4210142324","display_name":"CY Cergy Paris Universit\u00e9","ror":"https://ror.org/043htjv09","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210142324"]},{"id":"https://openalex.org/I4210146074","display_name":"Analyse, G\u00e9om\u00e9trie et Mod\u00e9lisation","ror":"https://ror.org/03qgt2624","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210141950","https://openalex.org/I4210142324","https://openalex.org/I4210146074"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"J\u00e9r\u00e9my Esque","raw_affiliation_strings":["LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France","LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France","institution_ids":["https://openalex.org/I4210146074","https://openalex.org/I4210116171","https://openalex.org/I4210142324","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I4210091780","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I4210142324","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023590899","display_name":"Sylvain L\u00e9onard","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I4210091780","display_name":"Institut National de la Transfusion Sanguine","ror":"https://ror.org/00fh58138","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210091780"]},{"id":"https://openalex.org/I4210142324","display_name":"CY Cergy Paris Universit\u00e9","ror":"https://ror.org/043htjv09","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210142324"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Sylvain L\u00e9onard","raw_affiliation_strings":["LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I4210091780","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I4210142324","https://openalex.org/I154526488"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024376929","display_name":"Alexandre G. de Brevern","orcid":"https://orcid.org/0000-0001-7112-5626"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I4210091780","display_name":"Institut National de la Transfusion Sanguine","ror":"https://ror.org/00fh58138","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210091780"]},{"id":"https://openalex.org/I4210142324","display_name":"CY Cergy Paris Universit\u00e9","ror":"https://ror.org/043htjv09","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210142324"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Alexandre G. de Brevern","raw_affiliation_strings":["LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I4210091780","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I4210142324","https://openalex.org/I154526488"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073345998","display_name":"C. Oguey","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I4210091780","display_name":"Institut National de la Transfusion Sanguine","ror":"https://ror.org/00fh58138","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210091780"]},{"id":"https://openalex.org/I4210142324","display_name":"CY Cergy Paris Universit\u00e9","ror":"https://ror.org/043htjv09","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210142324"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Christophe Oguey","raw_affiliation_strings":["LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LPTM, CNRS UMR 8089, Universit\u00e9 Cergy-Pontoise, F-95302 Cergy-Pontoise, France, 2INSERM, U665, DSIMB, F-75739 Paris, France, 3Univ Paris Diderot, Sorbonne Paris Cit\u00e9, UMR-S665, F-75739 Paris, France, 4Institut National de la Transfusion Sanguine (INTS), F-75739 Paris, France and 5Laboratoire d'Excellence GR-Ex, F-75739 Paris, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I4210091780","https://openalex.org/I1294671590","https://openalex.org/I4210091437","https://openalex.org/I169173203","https://openalex.org/I4210142324","https://openalex.org/I154526488"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5024376929"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I169173203","https://openalex.org/I204730241","https://openalex.org/I4210091437","https://openalex.org/I4210091780","https://openalex.org/I4210142324"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.4604,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.60849981,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"41","issue":"W1","first_page":"W373","last_page":"W378"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9998999834060669,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9998000264167786,"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":0.9912999868392944,"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/voronoi-diagram","display_name":"Voronoi diagram","score":0.8267974853515625},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6452845335006714},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.5763869285583496},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5215190052986145},{"id":"https://openalex.org/keywords/opengl","display_name":"OpenGL","score":0.515061616897583},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.45963555574417114},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4596097469329834},{"id":"https://openalex.org/keywords/delaunay-triangulation","display_name":"Delaunay triangulation","score":0.42476731538772583},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.42330530285835266},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.41686782240867615},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics","score":0.4113808274269104},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.4035622775554657},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3884945511817932},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34968453645706177},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.3443112373352051},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.31804317235946655},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.2960226535797119},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.2920973598957062},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.22061124444007874},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.14101111888885498},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.13775351643562317},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.1376936435699463},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10769674181938171}],"concepts":[{"id":"https://openalex.org/C24881265","wikidata":"https://www.wikidata.org/wiki/Q757267","display_name":"Voronoi diagram","level":2,"score":0.8267974853515625},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6452845335006714},{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.5763869285583496},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5215190052986145},{"id":"https://openalex.org/C2778305236","wikidata":"https://www.wikidata.org/wiki/Q178570","display_name":"OpenGL","level":3,"score":0.515061616897583},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.45963555574417114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4596097469329834},{"id":"https://openalex.org/C68010082","wikidata":"https://www.wikidata.org/wiki/Q192445","display_name":"Delaunay triangulation","level":2,"score":0.42476731538772583},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.42330530285835266},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.41686782240867615},{"id":"https://openalex.org/C77660652","wikidata":"https://www.wikidata.org/wiki/Q150971","display_name":"Computer graphics","level":2,"score":0.4113808274269104},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.4035622775554657},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3884945511817932},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34968453645706177},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.3443112373352051},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.31804317235946655},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.2960226535797119},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.2920973598957062},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.22061124444007874},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.14101111888885498},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.13775351643562317},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.1376936435699463},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10769674181938171}],"mesh":[{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"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},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkt509","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt509","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W373/3881120/gkt509.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:23761450","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23761450","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:HAL:inserm-00926547v1","is_oa":true,"landing_page_url":"https://inserm.hal.science/inserm-00926547","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Research, 2013, 41 (Web Server issue), pp.W373-8. &#x27E8;10.1093/nar/gkt509&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:europepmc.org:2686094","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3692094","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkt509","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt509","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W373/3881120/gkt509.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320893","display_name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","ror":"https://ror.org/02vjkv261"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"},{"id":"https://openalex.org/F4320323399","display_name":"Universit\u00e9 Paris Diderot","ror":"https://ror.org/02n7qrg46"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1998417204.pdf","grobid_xml":"https://content.openalex.org/works/W1998417204.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1966078827","https://openalex.org/W1981309130","https://openalex.org/W1989341381","https://openalex.org/W2003240840","https://openalex.org/W2005120335","https://openalex.org/W2008708467","https://openalex.org/W2014074723","https://openalex.org/W2031765531","https://openalex.org/W2039181331","https://openalex.org/W2048718740","https://openalex.org/W2054881399","https://openalex.org/W2069309953","https://openalex.org/W2081897966","https://openalex.org/W2087277745","https://openalex.org/W2093945918","https://openalex.org/W2097775420","https://openalex.org/W2107326055","https://openalex.org/W2114370367","https://openalex.org/W2124036707","https://openalex.org/W2125200874","https://openalex.org/W2126103104","https://openalex.org/W2130479394","https://openalex.org/W2133179696","https://openalex.org/W2141920771","https://openalex.org/W2148823738","https://openalex.org/W2149301682","https://openalex.org/W2150645520","https://openalex.org/W2154854306","https://openalex.org/W2168040923","https://openalex.org/W2168632486"],"related_works":["https://openalex.org/W2354869996","https://openalex.org/W1481755670","https://openalex.org/W2359751290","https://openalex.org/W2206755844","https://openalex.org/W2371448287","https://openalex.org/W2358109229","https://openalex.org/W2096247527","https://openalex.org/W431872879","https://openalex.org/W2013211627","https://openalex.org/W2032140021"],"abstract_inverted_index":{"Protein":[0,57],"structures":[1,20],"are":[2,173],"an":[3],"ensemble":[4],"of":[5,38,50,103,113,125,147,157],"atoms":[6],"determined":[7],"experimentally":[8],"mostly":[9,151],"by":[10,93],"X-ray":[11],"crystallography":[12],"or":[13],"Nuclear":[14],"Magnetic":[15],"Resonance.":[16],"Studying":[17],"3D":[18],"protein":[19,28,43],"is":[21,136],"a":[22,31,36,66],"key":[23],"point":[24],"for":[25,41,165,175,177],"better":[26],"understanding":[27],"function":[29],"at":[30,184],"molecular":[32,154],"level.":[33],"We":[34],"propose":[35],"set":[37],"accurate":[39],"tools,":[40],"analysing":[42],"structures,":[44],"based":[45],"on":[46,65],"the":[47,62,80,107,114,122,148],"reliable":[48],"method":[49],"Voronoi-Laguerre":[51],"tessellations.":[52],"The":[53],"Voronoi":[54],"Laguerre":[55,63,149],"Delaunay":[56],"web":[58,134],"server":[59,135],"(VLDPws)":[60],"computes":[61],"tessellation":[64],"whole":[67],"given":[68,108],"system":[69],"first":[70],"embedded":[71],"in":[72,127,141],"solvent.":[73],"Through":[74],"this":[75],"fine":[76],"description,":[77],"VLDPws":[78,138,180],"gives":[79],"following":[81],"data:":[82],"(i)":[83],"Amino":[84],"acid":[85],"volumes":[86],"evaluated":[87],"with":[88,96],"high":[89],"precision,":[90],"as":[91],"confirmed":[92],"good":[94],"correlations":[95],"experimental":[97],"data.":[98],"(ii)":[99],"A":[100,111],"novel":[101],"definition":[102],"inter-residue":[104],"contacts":[105,161],"within":[106],"protein.":[109],"(iii)":[110],"measure":[112],"residue":[115,167],"exposure":[116],"to":[117],"solvent":[118],"that":[119],"significantly":[120],"improves":[121],"standard":[123],"notion":[124],"accessibility":[126],"some":[128],"cases.":[129],"At":[130],"present,":[131],"no":[132],"equivalent":[133],"available.":[137],"provides":[139],"output":[140],"two":[142],"complementary":[143],"forms:":[144],"direct":[145],"visualization":[146],"tessellation,":[150],"its":[152],"polygonal":[153],"surfaces;":[155],"files":[156,172],"volumes;":[158],"and":[159,162,168],"areas,":[160],"similar":[163],"data":[164],"each":[166,169],"atom.":[170],"These":[171],"available":[174],"download":[176],"further":[178],"analysis.":[179],"can":[181],"be":[182],"accessed":[183],"http://www.dsimb.inserm.fr/dsimb_tools/vldp.":[185]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2}],"updated_date":"2026-05-07T13:39:58.223016","created_date":"2025-10-10T00:00:00"}
