{"id":"https://openalex.org/W3011505309","doi":"https://doi.org/10.1186/s12859-020-3352-x","title":"GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns","display_name":"GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns","publication_year":2020,"publication_date":"2020-03-01","ids":{"openalex":"https://openalex.org/W3011505309","doi":"https://doi.org/10.1186/s12859-020-3352-x","mag":"3011505309","pmid":"https://pubmed.ncbi.nlm.nih.gov/32164553"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-3352-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3352-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3352-x.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3352-x.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010147021","display_name":"Renzo Angles","orcid":"https://orcid.org/0000-0002-6740-9711"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]},{"id":"https://openalex.org/I4210167034","display_name":"Millennium Institute for Integrative Biology","ror":"https://ror.org/05xcmte05","country_code":"CL","type":"other","lineage":["https://openalex.org/I4210167034"]}],"countries":["CL"],"is_corresponding":true,"raw_author_name":"Renzo Angles","raw_affiliation_strings":["Department of Computer Science, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile. rangles@utalca.cl","Millennium Institute for Foundational Research on Data, Santiago, Chile. rangles@utalca.cl","Department of Computer Science, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile. rangles@utalca.cl","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Millennium Institute for Foundational Research on Data, Santiago, Chile. rangles@utalca.cl","institution_ids":["https://openalex.org/I4210167034"]},{"raw_affiliation_string":"Department of Computer Science, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031521552","display_name":"Mauricio Arenas\u2010Salinas","orcid":"https://orcid.org/0000-0001-5143-1845"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Mauricio Arenas-Salinas","raw_affiliation_strings":["Centro de Bioinform\u00e1tica y Simulaci\u00f3n Molecular, Universidad de Talca, Talca, Chile","Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro de Bioinform\u00e1tica y Simulaci\u00f3n Molecular, Universidad de Talca, Talca, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103076388","display_name":"Roberto Garc\u00eda","orcid":"https://orcid.org/0000-0001-6466-4541"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]},{"id":"https://openalex.org/I4210167034","display_name":"Millennium Institute for Integrative Biology","ror":"https://ror.org/05xcmte05","country_code":"CL","type":"other","lineage":["https://openalex.org/I4210167034"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Roberto Garc\u00eda","raw_affiliation_strings":["Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile","Millennium Institute for Foundational Research on Data, Santiago, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Millennium Institute for Foundational Research on Data, Santiago, Chile","institution_ids":["https://openalex.org/I4210167034"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090243289","display_name":"Jos\u00e9 Antonio Reyes-Su\u00e1rez","orcid":"https://orcid.org/0000-0002-3506-3787"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Jose Antonio Reyes-Suarez","raw_affiliation_strings":["Centro de Bioinform\u00e1tica y Simulaci\u00f3n Molecular, Universidad de Talca, Talca, Chile","Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro de Bioinform\u00e1tica y Simulaci\u00f3n Molecular, Universidad de Talca, Talca, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Faculty of Engineering, Universidad de Talca, Camino Los Niches Km 1, Curic\u00f3, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5069937415","display_name":"Ehmke Pohl","orcid":"https://orcid.org/0000-0002-9949-4471"},"institutions":[{"id":"https://openalex.org/I190082696","display_name":"Durham University","ror":"https://ror.org/01v29qb04","country_code":"GB","type":"education","lineage":["https://openalex.org/I190082696"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ehmke Pohl","raw_affiliation_strings":["Department of Biosciences, Durham University, Durham, DH1 3LE, United Kingdom","Department of Chemistry, Durham University, Durham, DH1 3LE, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biosciences, Durham University, Durham, DH1 3LE, United Kingdom","institution_ids":["https://openalex.org/I190082696"]},{"raw_affiliation_string":"Department of Chemistry, Durham University, Durham, DH1 3LE, United Kingdom","institution_ids":["https://openalex.org/I190082696"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5010147021"],"corresponding_institution_ids":["https://openalex.org/I134695357","https://openalex.org/I4210167034"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":1.7147,"has_fulltext":true,"cited_by_count":29,"citation_normalized_percentile":{"value":0.84592773,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"21","issue":"S2","first_page":"85","last_page":"85"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.5705000162124634,"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":0.5705000162124634,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.12790000438690186,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.065700002014637,"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/computer-science","display_name":"Computer science","score":0.6956969499588013},{"id":"https://openalex.org/keywords/protein-ligand","display_name":"Protein ligand","score":0.5810562968254089},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.5285752415657043},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5080344676971436},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.4806705415248871},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4142093360424042},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.398858904838562},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3979331851005554},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2025742530822754},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.20049160718917847},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.08020693063735962}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6956969499588013},{"id":"https://openalex.org/C109095088","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Protein ligand","level":2,"score":0.5810562968254089},{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.5285752415657043},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5080344676971436},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.4806705415248871},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4142093360424042},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.398858904838562},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3979331851005554},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2025742530822754},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.20049160718917847},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.08020693063735962}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","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":true},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016335","descriptor_name":"Zinc Fingers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016335","descriptor_name":"Zinc Fingers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016335","descriptor_name":"Zinc Fingers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016335","descriptor_name":"Zinc Fingers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-020-3352-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3352-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3352-x.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32164553","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32164553","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:dro.dur.ac.uk.OAI2:30535","is_oa":true,"landing_page_url":"http://dro.dur.ac.uk/30535/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400188","display_name":"Durham Research Online (Durham University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I190082696","host_organization_name":"Durham University","host_organization_lineage":["https://openalex.org/I190082696"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"BMC bioinformatics, 2020, Vol.21(S2), pp.85 [Peer Reviewed Journal]","raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:c70fe2aae6634c219a8072ba4b01ebb7","is_oa":true,"landing_page_url":"https://doaj.org/article/c70fe2aae6634c219a8072ba4b01ebb7","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss S2, Pp 1-15 (2020)","raw_type":"article"},{"id":"pmh:oai:durham-repository.worktribe.com:1274205","is_oa":true,"landing_page_url":"https://durham-repository.worktribe.com/output/1274205","pdf_url":null,"source":{"id":"https://openalex.org/S4306400188","display_name":"Durham Research Online (Durham University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I190082696","host_organization_name":"Durham University","host_organization_lineage":["https://openalex.org/I190082696"],"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":null,"raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:6029123","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7068854","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-3352-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3352-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3352-x.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320326517","display_name":"Universidad de Talca","ror":"https://ror.org/01s4gpq44"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3011505309.pdf","grobid_xml":"https://content.openalex.org/works/W3011505309.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1480121071","https://openalex.org/W1495258543","https://openalex.org/W1856405414","https://openalex.org/W1928629620","https://openalex.org/W1964734406","https://openalex.org/W1971650367","https://openalex.org/W1973661008","https://openalex.org/W1980969309","https://openalex.org/W2011703027","https://openalex.org/W2016277862","https://openalex.org/W2019345165","https://openalex.org/W2027853648","https://openalex.org/W2047436987","https://openalex.org/W2053658804","https://openalex.org/W2054655838","https://openalex.org/W2059371854","https://openalex.org/W2074473216","https://openalex.org/W2083619093","https://openalex.org/W2091159078","https://openalex.org/W2093377893","https://openalex.org/W2113865463","https://openalex.org/W2114162221","https://openalex.org/W2120869341","https://openalex.org/W2130479394","https://openalex.org/W2140047797","https://openalex.org/W2140445011","https://openalex.org/W2147638953","https://openalex.org/W2160672469","https://openalex.org/W2165505471","https://openalex.org/W2169087593","https://openalex.org/W2267582375","https://openalex.org/W2288713920","https://openalex.org/W2322633051","https://openalex.org/W2395595192","https://openalex.org/W2413373620","https://openalex.org/W2476071496","https://openalex.org/W2529730745","https://openalex.org/W2580484352","https://openalex.org/W2751476102","https://openalex.org/W2765960641","https://openalex.org/W2770646498","https://openalex.org/W2786122698","https://openalex.org/W2791184926","https://openalex.org/W2806399642","https://openalex.org/W2899070097","https://openalex.org/W2913431254"],"related_works":["https://openalex.org/W2090630809","https://openalex.org/W1559108998","https://openalex.org/W4387033830","https://openalex.org/W3013529667","https://openalex.org/W2612329522","https://openalex.org/W206110253","https://openalex.org/W1993046136","https://openalex.org/W2053132779","https://openalex.org/W2139779008","https://openalex.org/W2168565692"],"abstract_inverted_index":{"BACKGROUND:":[0],"In":[1],"the":[2,9,42,53,61,82,87,95,119,134,144,149,154,163],"field":[3],"of":[4,13,63,86,109,137,143,153,169,195],"protein":[5,30],"engineering":[6],"and":[7,11,29,47,92,94,114,125,161,179,186,191],"biotechnology,":[8],"discovery":[10],"characterization":[12],"structural":[14,50,65,98,135],"patterns":[15,21,51,194],"is":[16,78,111,183],"highly":[17],"relevant":[18],"as":[19,68],"these":[20],"can":[22,121,158],"give":[23],"fundamental":[24],"insights":[25],"into":[26],"protein-ligand":[27,49,74,88,196],"interaction":[28],"function.":[31],"This":[32],"paper":[33],"presents":[34],"GSP4PDB,":[35],"a":[36,79,112,123,130,166,184],"bioinformatics":[37],"web":[38],"tool":[39],"that":[40],"enables":[41],"user":[43,120,157],"to":[44,189],"visualize,":[45],"search":[46,128,145,190],"explore":[48,160],"within":[52],"entire":[54],"Protein":[55],"Data":[56],"Bank.":[57],"RESULTS:":[58],"We":[59],"introduce":[60],"notion":[62],"graph-based":[64,151],"pattern":[66],"(GSP)":[67],"an":[69],"abstract":[70],"model":[71],"for":[72,176],"representing":[73],"interactions.":[75],"A":[76],"GSP":[77,124],"graph":[80],"where":[81,118],"nodes":[83],"represent":[84,97],"entities":[85],"complex":[89],"(amino":[90],"acids":[91],"ligands)":[93],"edges":[96],"relationships":[99],"(e.g.":[100],"distances":[101],"ligand":[102],"-":[103],"amino":[104],"acid).":[105],"The":[106,141,156],"novel":[107],"feature":[108],"GSP4PDB":[110,182],"simple":[113],"intuitive":[115],"graphical":[116],"interface":[117],"\"draw\"":[122],"execute":[126],"its":[127],"in":[129],"relational":[131],"database":[132],"containing":[133],"data":[136],"each":[138],"PDB":[139],"entry.":[140],"results":[142,164],"are":[146],"displayed":[147],"using":[148,165],"same":[150],"representation":[152],"pattern.":[155],"further":[159],"analyse":[162],"wide":[167],"range":[168],"filters,":[170],"or":[171],"download":[172],"their":[173],"related":[174],"information":[175],"external":[177],"post-processing":[178],"analysis.":[180],"CONCLUSIONS:":[181],"user-friendly":[185],"efficient":[187],"application":[188],"discover":[192],"new":[193],"interaction.":[197]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":7}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
