{"id":"https://openalex.org/W3161611262","doi":"https://doi.org/10.1371/journal.pcbi.1008988","title":"Molecular dynamics shows complex interplay and long-range effects of post-translational modifications in yeast protein interactions","display_name":"Molecular dynamics shows complex interplay and long-range effects of post-translational modifications in yeast protein interactions","publication_year":2021,"publication_date":"2021-05-12","ids":{"openalex":"https://openalex.org/W3161611262","doi":"https://doi.org/10.1371/journal.pcbi.1008988","mag":"3161611262","pmid":"https://pubmed.ncbi.nlm.nih.gov/33979327"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1008988","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008988","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1008988","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5027269332","display_name":"Nikolina \u0160o\u0161tari\u0107","orcid":"https://orcid.org/0000-0002-1470-7846"},"institutions":[{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Nikolina \u0160o\u0161tari\u0107","raw_affiliation_strings":["KU Leuven, Centre of Microbial and Plant Genetics, Leuven, Belgium"],"raw_orcid":"https://orcid.org/0000-0002-1470-7846","affiliations":[{"raw_affiliation_string":"KU Leuven, Centre of Microbial and Plant Genetics, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002077696","display_name":"Vera van Noort","orcid":"https://orcid.org/0000-0002-8436-6602"},"institutions":[{"id":"https://openalex.org/I121797337","display_name":"Leiden University","ror":"https://ror.org/027bh9e22","country_code":"NL","type":"education","lineage":["https://openalex.org/I121797337"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","NL"],"is_corresponding":true,"raw_author_name":"Vera van Noort","raw_affiliation_strings":["KU Leuven, Centre of Microbial and Plant Genetics, Leuven, Belgium","Leiden University, Institute of Biology Leiden, Leiden, The Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-8436-6602","affiliations":[{"raw_affiliation_string":"KU Leuven, Centre of Microbial and Plant Genetics, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096"]},{"raw_affiliation_string":"Leiden University, Institute of Biology Leiden, Leiden, The Netherlands","institution_ids":["https://openalex.org/I121797337"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5002077696"],"corresponding_institution_ids":["https://openalex.org/I121797337","https://openalex.org/I99464096"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.1882,"has_fulltext":false,"cited_by_count":21,"citation_normalized_percentile":{"value":0.77919716,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"17","issue":"5","first_page":"e1008988","last_page":"e1008988"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10497","display_name":"Fungal and yeast genetics research","score":0.9962000250816345,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.9962000250816345,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9961000084877014,"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":0.9958999752998352,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.66603022813797},{"id":"https://openalex.org/keywords/saccharomyces-cerevisiae","display_name":"Saccharomyces cerevisiae","score":0.6633293032646179},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.6554436683654785},{"id":"https://openalex.org/keywords/yeast","display_name":"Yeast","score":0.6436185240745544},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6140568256378174},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.44394177198410034},{"id":"https://openalex.org/keywords/protein-dynamics","display_name":"Protein dynamics","score":0.44326621294021606},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4378063678741455},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.42564159631729126},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.4090372920036316},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.36011186242103577},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.3013198971748352},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11655819416046143},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.09397086501121521}],"concepts":[{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.66603022813797},{"id":"https://openalex.org/C2777576037","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Saccharomyces cerevisiae","level":3,"score":0.6633293032646179},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.6554436683654785},{"id":"https://openalex.org/C2779222958","wikidata":"https://www.wikidata.org/wiki/Q45422","display_name":"Yeast","level":2,"score":0.6436185240745544},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6140568256378174},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.44394177198410034},{"id":"https://openalex.org/C2775981520","wikidata":"https://www.wikidata.org/wiki/Q17156992","display_name":"Protein dynamics","level":3,"score":0.44326621294021606},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4378063678741455},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.42564159631729126},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4090372920036316},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.36011186242103577},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3013198971748352},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11655819416046143},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.09397086501121521}],"mesh":[{"descriptor_ui":"D000107","descriptor_name":"Acetylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000107","descriptor_name":"Acetylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000107","descriptor_name":"Acetylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","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":"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":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1008988","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008988","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:33979327","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33979327","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:lirias2repo.kuleuven.be:123456789/675034","is_oa":true,"landing_page_url":"https://lirias.kuleuven.be/handle/123456789/675034","pdf_url":null,"source":{"id":"https://openalex.org/S7407055369","display_name":"Lirias","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Plos Computational Biology, vol. 17 (5), Art.No. e1008988","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:7d9bd16097804928921c340fa3d06a82","is_oa":true,"landing_page_url":"https://doaj.org/article/7d9bd16097804928921c340fa3d06a82","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":"PLoS Computational Biology, Vol 17, Iss 5, p e1008988 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8143416","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8143416","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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1008988","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008988","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.6200000047683716}],"awards":[{"id":"https://openalex.org/G190218723","display_name":"Function of post-translational modifications in protein structures","funder_award_id":"1112318N","funder_id":"https://openalex.org/F4320321730","funder_display_name":"Fonds Wetenschappelijk Onderzoek"}],"funders":[{"id":"https://openalex.org/F4320319128","display_name":"Vlaams Supercomputer Centrum","ror":null},{"id":"https://openalex.org/F4320321730","display_name":"Fonds Wetenschappelijk Onderzoek","ror":"https://ror.org/03qtxy027"},{"id":"https://openalex.org/F4320322308","display_name":"KU Leuven","ror":"https://ror.org/05f950310"},{"id":"https://openalex.org/F4320322681","display_name":"Onderzoeksraad, KU Leuven","ror":"https://ror.org/05f950310"},{"id":"https://openalex.org/F4320327336","display_name":"Vlaamse regering","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":71,"referenced_works":["https://openalex.org/W1762366815","https://openalex.org/W1911047059","https://openalex.org/W1966078827","https://openalex.org/W1966510662","https://openalex.org/W1968984443","https://openalex.org/W1981021420","https://openalex.org/W1982585426","https://openalex.org/W1990056483","https://openalex.org/W1995254028","https://openalex.org/W1996310767","https://openalex.org/W2005893121","https://openalex.org/W2008708467","https://openalex.org/W2010516785","https://openalex.org/W2011301426","https://openalex.org/W2022922908","https://openalex.org/W2023490488","https://openalex.org/W2028161249","https://openalex.org/W2029667189","https://openalex.org/W2029903254","https://openalex.org/W2032091997","https://openalex.org/W2035687084","https://openalex.org/W2057477511","https://openalex.org/W2059013803","https://openalex.org/W2074418202","https://openalex.org/W2077873773","https://openalex.org/W2080403967","https://openalex.org/W2082541302","https://openalex.org/W2092722802","https://openalex.org/W2095719702","https://openalex.org/W2101876702","https://openalex.org/W2103945336","https://openalex.org/W2104300069","https://openalex.org/W2111896563","https://openalex.org/W2115339329","https://openalex.org/W2119178529","https://openalex.org/W2123768693","https://openalex.org/W2123929534","https://openalex.org/W2125022522","https://openalex.org/W2125520334","https://openalex.org/W2130479394","https://openalex.org/W2132617512","https://openalex.org/W2138113852","https://openalex.org/W2138782665","https://openalex.org/W2155841258","https://openalex.org/W2156891333","https://openalex.org/W2156961771","https://openalex.org/W2162103775","https://openalex.org/W2164018321","https://openalex.org/W2168172687","https://openalex.org/W2171268876","https://openalex.org/W2223752691","https://openalex.org/W2285907571","https://openalex.org/W2289329235","https://openalex.org/W2409039558","https://openalex.org/W2599616891","https://openalex.org/W2601092243","https://openalex.org/W2610582292","https://openalex.org/W2786505886","https://openalex.org/W2886209631","https://openalex.org/W2887364046","https://openalex.org/W2889665881","https://openalex.org/W2900206619","https://openalex.org/W2901164269","https://openalex.org/W2912820434","https://openalex.org/W2935922533","https://openalex.org/W2949814610","https://openalex.org/W2950458332","https://openalex.org/W2969729973","https://openalex.org/W3000207785","https://openalex.org/W3136918052","https://openalex.org/W4210968583"],"related_works":["https://openalex.org/W1982829397","https://openalex.org/W2347437365","https://openalex.org/W2106414650","https://openalex.org/W1999412725","https://openalex.org/W4390205769","https://openalex.org/W2124137418","https://openalex.org/W2391458050","https://openalex.org/W3022402204","https://openalex.org/W2086860678","https://openalex.org/W2114732768"],"abstract_inverted_index":{"Post-translational":[0],"modifications":[1],"(PTMs)":[2],"play":[3],"a":[4,39,138],"vital,":[5],"yet":[6],"often":[7],"overlooked":[8],"role":[9],"in":[10,88,115,180,214],"the":[11,43,49,68,119,126,146,161,166,176,206,209],"living":[12],"cells":[13],"through":[14],"modulation":[15,207],"of":[16,45,51,98,129,141,148,155,175,205,208],"protein":[17,82,116,211],"properties,":[18],"such":[19],"as":[20],"localization":[21],"and":[22,84,91,100,105,150,216],"affinity":[23],"towards":[24],"their":[25],"interactors,":[26],"thereby":[27],"enabling":[28],"quick":[29],"adaptation":[30],"to":[31,75,152,164,192,201],"changing":[32],"environmental":[33],"conditions.":[34,93],"We":[35,94,158],"have":[36,111],"previously":[37],"benchmarked":[38],"computational":[40],"framework":[41,74],"for":[42,123,186],"prediction":[44],"PTMs'":[46],"effects":[47,97],"on":[48,79,102,131],"stability":[50],"protein-protein":[52,103,132],"interactions,":[53,117],"which":[54],"has":[55],"molecular":[56],"dynamics":[57],"simulations":[58],"followed":[59],"by":[60,145,171],"free":[61],"energy":[62],"calculations":[63],"at":[64],"its":[65],"core.":[66],"In":[67],"present":[69],"work,":[70,198],"we":[71],"apply":[72],"this":[73],"publicly":[76],"available":[77],"data":[78,163],"Saccharomyces":[80],"cerevisiae":[81],"structures":[83],"PTM":[85,156,178],"sites,":[86],"identified":[87],"both":[89],"normal":[90],"stress":[92],"predict":[95],"proteome-wide":[96],"acetylations":[99,108],"phosphorylations":[101],"interactions":[104,133],"find":[106],"that":[107,183],"more":[109,135],"frequently":[110],"locally":[112],"stabilizing":[113],"roles":[114],"while":[118],"opposite":[120],"is":[121,134],"true":[122],"phosphorylations.":[124],"However,":[125],"overall":[127,203],"impact":[128],"PTMs":[130,149],"complex":[136],"than":[137],"simple":[139],"sum":[140],"local":[142],"changes":[143,168],"caused":[144],"introduction":[147],"adds":[151],"our":[153,202],"understanding":[154,204],"cross-talk.":[157],"further":[159],"use":[160],"obtained":[162],"calculate":[165],"conformational":[167],"brought":[169],"about":[170],"PTMs.":[172],"Finally,":[173],"conservation":[174],"analyzed":[177],"residues":[179],"orthologues":[181],"shows":[182],"some":[184],"predictions":[185],"yeast":[187,215],"proteins":[188],"will":[189],"be":[190],"mirrored":[191],"other":[193],"organisms,":[194],"including":[195],"human.":[196],"This":[197],"therefore,":[199],"contributes":[200],"cellular":[210],"interaction":[212],"networks":[213],"beyond.":[217]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":6}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
