{"id":"https://openalex.org/W4226091362","doi":"https://doi.org/10.1093/bib/bbac165","title":"Structural landscapes of PPI interfaces","display_name":"Structural landscapes of PPI interfaces","publication_year":2022,"publication_date":"2022-04-20","ids":{"openalex":"https://openalex.org/W4226091362","doi":"https://doi.org/10.1093/bib/bbac165","pmid":"https://pubmed.ncbi.nlm.nih.gov/35656714"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac165","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac165","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1093/bib/bbac165","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001797627","display_name":"Carlos H. M. Rodrigues","orcid":null},"institutions":[{"id":"https://openalex.org/I142471025","display_name":"Baker Heart and Diabetes Institute","ror":"https://ror.org/03rke0285","country_code":"AU","type":"nonprofit","lineage":["https://openalex.org/I142471025"]},{"id":"https://openalex.org/I165143802","display_name":"The University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Carlos H M Rodrigues","raw_affiliation_strings":["Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","School of Chemistry and Molecular Biosciences, Bio21 Institute, University of Queensland , Brisbane, Victoria","Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","institution_ids":["https://openalex.org/I142471025"]},{"raw_affiliation_string":"School of Chemistry and Molecular Biosciences, Bio21 Institute, University of Queensland , Brisbane, Victoria","institution_ids":["https://openalex.org/I165143802"]},{"raw_affiliation_string":"Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071950872","display_name":"Douglas E. V. Pires","orcid":"https://orcid.org/0000-0002-3004-2119"},"institutions":[{"id":"https://openalex.org/I142471025","display_name":"Baker Heart and Diabetes Institute","ror":"https://ror.org/03rke0285","country_code":"AU","type":"nonprofit","lineage":["https://openalex.org/I142471025"]},{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Douglas E V Pires","raw_affiliation_strings":["Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","School of Computing and Information Systems, University of Melbourne , Melbourne, Victoria","Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria"],"raw_orcid":"https://orcid.org/0000-0002-3004-2119","affiliations":[{"raw_affiliation_string":"Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","institution_ids":["https://openalex.org/I142471025"]},{"raw_affiliation_string":"School of Computing and Information Systems, University of Melbourne , Melbourne, Victoria","institution_ids":["https://openalex.org/I165779595"]},{"raw_affiliation_string":"Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001029093","display_name":"Tom L. Blundell","orcid":"https://orcid.org/0000-0002-2708-8992"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Tom L Blundell","raw_affiliation_strings":["Department of Biochemistry, University of Cambridge , Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge , Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091903225","display_name":"David B. Ascher","orcid":"https://orcid.org/0000-0003-2948-2413"},"institutions":[{"id":"https://openalex.org/I142471025","display_name":"Baker Heart and Diabetes Institute","ror":"https://ror.org/03rke0285","country_code":"AU","type":"nonprofit","lineage":["https://openalex.org/I142471025"]},{"id":"https://openalex.org/I165143802","display_name":"The University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]},{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["AU","GB"],"is_corresponding":true,"raw_author_name":"David B Ascher","raw_affiliation_strings":["Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","Department of Biochemistry, University of Cambridge , Cambridge, UK","School of Chemistry and Molecular Biosciences, Bio21 Institute, University of Queensland , Brisbane, Victoria","Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria"],"raw_orcid":"https://orcid.org/0000-0003-2948-2413","affiliations":[{"raw_affiliation_string":"Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute , Melbourne, Victoria","institution_ids":["https://openalex.org/I142471025"]},{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge , Cambridge, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"School of Chemistry and Molecular Biosciences, Bio21 Institute, University of Queensland , Brisbane, Victoria","institution_ids":["https://openalex.org/I165143802"]},{"raw_affiliation_string":"Systems and Computational Biology, Bio21 Institute, University of Melbourne , Melbourne, Victoria","institution_ids":["https://openalex.org/I165779595"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5091903225"],"corresponding_institution_ids":["https://openalex.org/I142471025","https://openalex.org/I165143802","https://openalex.org/I165779595","https://openalex.org/I241749"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":3.9756,"has_fulltext":false,"cited_by_count":31,"citation_normalized_percentile":{"value":0.9443232,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"23","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10923","display_name":"Force Microscopy Techniques and Applications","score":0.995199978351593,"subfield":{"id":"https://openalex.org/subfields/3107","display_name":"Atomic and Molecular Physics, and Optics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10923","display_name":"Force Microscopy Techniques and Applications","score":0.995199978351593,"subfield":{"id":"https://openalex.org/subfields/3107","display_name":"Atomic and Molecular Physics, and Optics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12285","display_name":"Surface Chemistry and Catalysis","score":0.9932000041007996,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9929999709129333,"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":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6125041246414185}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6125041246414185}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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":"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":"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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbac165","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac165","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35656714","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35656714","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9294409","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9294409","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbac165","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac165","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1641483229","display_name":"Newton001 Understanding Antimicrobial Resistance Mutations in Tuberculosis: Towards Personalised Treatment to Combat Multi-drug Resistance","funder_award_id":"MR/M026302/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G4256460599","display_name":null,"funder_award_id":"093167/Z/10/Z","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G6454673195","display_name":null,"funder_award_id":"GNT1174405","funder_id":"https://openalex.org/F4320334705","funder_display_name":"National Health and Medical Research Council"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"},{"id":"https://openalex.org/F4320334705","display_name":"National Health and Medical Research Council","ror":"https://ror.org/011kf5r70"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W194434573","https://openalex.org/W1673310716","https://openalex.org/W1965114824","https://openalex.org/W1965379872","https://openalex.org/W1984452172","https://openalex.org/W1985153601","https://openalex.org/W1986522554","https://openalex.org/W1988739180","https://openalex.org/W1993591356","https://openalex.org/W2030071974","https://openalex.org/W2031772330","https://openalex.org/W2039092320","https://openalex.org/W2056034415","https://openalex.org/W2058931873","https://openalex.org/W2063725620","https://openalex.org/W2074964005","https://openalex.org/W2103459989","https://openalex.org/W2114850508","https://openalex.org/W2130479394","https://openalex.org/W2156125289","https://openalex.org/W2165739018","https://openalex.org/W2181523240","https://openalex.org/W2338762894","https://openalex.org/W2560264526","https://openalex.org/W2743857398","https://openalex.org/W3003257820","https://openalex.org/W3103145119","https://openalex.org/W3177828909","https://openalex.org/W3183475563","https://openalex.org/W3186179742","https://openalex.org/W3202105508","https://openalex.org/W4249030130","https://openalex.org/W6637131181","https://openalex.org/W6802033083"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Proteins":[0],"are":[1,8,64,133],"capable":[2],"of":[3,14,22,32,59,84,90,108],"highly":[4],"specific":[5],"interactions":[6],"and":[7,53,87,129],"responsible":[9],"for":[10,117],"a":[11,81,105],"wide":[12],"range":[13],"functions,":[15],"making":[16],"them":[17],"attractive":[18],"in":[19,66,95],"the":[20,57,96,109],"pursuit":[21],"new":[23],"therapeutic":[24],"options.":[25],"Previous":[26],"studies":[27],"focusing":[28],"on":[29],"overall":[30,118],"geometry":[31,86],"protein-protein":[33,92,110],"interfaces,":[34],"however,":[35],"concluded":[36],"that":[37,63,115,123],"PPI":[38],"interfaces":[39,93,122],"were":[40],"generally":[41],"flat.":[42],"More":[43],"recently,":[44],"this":[45,101],"idea":[46],"has":[47],"been":[48],"challenged":[49],"by":[50],"their":[51],"structural":[52],"thermodynamic":[54],"characterisation,":[55],"suggesting":[56],"existence":[58],"concave":[60],"binding":[61,71,85,136],"sites":[62],"closer":[65],"character":[67],"to":[68],"traditional":[69],"small-molecule":[70],"sites,":[72],"rather":[73],"than":[74],"exhibiting":[75],"complete":[76],"flatness.":[77],"Here,":[78],"we":[79,103],"present":[80],"large-scale":[82],"analysis":[83],"physicochemical":[88],"properties":[89],"all":[91],"available":[94],"Protein":[97],"Data":[98],"Bank.":[99],"In":[100],"review,":[102],"provide":[104],"comprehensive":[106],"overview":[107],"interface":[111],"landscape,":[112],"including":[113],"evidence":[114],"even":[116],"larger,":[119],"more":[120],"flat":[121],"utilize":[124],"discontinuous":[125],"interacting":[126],"regions,":[127],"small":[128],"potentially":[130],"druggable":[131],"pockets":[132],"utilized":[134],"at":[135],"sites.":[137]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
