{"id":"https://openalex.org/W4380852853","doi":"https://doi.org/10.1021/acs.jcim.3c00557","title":"Drug Design in the Exascale Era: A Perspective from Massively Parallel QM/MM Simulations","display_name":"Drug Design in the Exascale Era: A Perspective from Massively Parallel QM/MM Simulations","publication_year":2023,"publication_date":"2023-06-15","ids":{"openalex":"https://openalex.org/W4380852853","doi":"https://doi.org/10.1021/acs.jcim.3c00557","pmid":"https://pubmed.ncbi.nlm.nih.gov/37319347"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.3c00557","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.3c00557","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.3c00557","source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.3c00557","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051186047","display_name":"Bharath Raghavan","orcid":"https://orcid.org/0000-0003-0186-2625"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]},{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Bharath Raghavan","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","Department of Physics, RWTH Aachen University, Aachen 52074, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]},{"raw_affiliation_string":"Department of Physics, RWTH Aachen University, Aachen 52074, Germany","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055948182","display_name":"Mirko Paulikat","orcid":"https://orcid.org/0000-0001-8403-2138"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Mirko Paulikat","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077078811","display_name":"Katya Ahmad","orcid":"https://orcid.org/0000-0003-2515-8990"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Katya Ahmad","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009022768","display_name":"Lara Callea","orcid":"https://orcid.org/0000-0003-0071-601X"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Lara Callea","raw_affiliation_strings":["Department of Earth and Environmental Sciences, University of Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Earth and Environmental Sciences, University of Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026440664","display_name":"Andrea Rizzi","orcid":"https://orcid.org/0000-0001-7693-2013"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]},{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["DE","IT"],"is_corresponding":false,"raw_author_name":"Andrea Rizzi","raw_affiliation_strings":["Atomistic Simulations, Italian Institute of Technology, Genova 16163, Italy","Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany"],"affiliations":[{"raw_affiliation_string":"Atomistic Simulations, Italian Institute of Technology, Genova 16163, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040648145","display_name":"Emiliano Ippoliti","orcid":"https://orcid.org/0000-0001-5513-8056"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Emiliano Ippoliti","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066715543","display_name":"Davide Mandelli","orcid":"https://orcid.org/0000-0002-6869-9511"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Davide Mandelli","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045019644","display_name":"Laura Bonati","orcid":"https://orcid.org/0000-0003-3028-0368"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Laura Bonati","raw_affiliation_strings":["Department of Earth and Environmental Sciences, University of Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy"],"affiliations":[{"raw_affiliation_string":"Department of Earth and Environmental Sciences, University of Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062592876","display_name":"Marco De Vivo","orcid":"https://orcid.org/0000-0003-4022-5661"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Marco De Vivo","raw_affiliation_strings":["Molecular Modelling and Drug Discovery, Italian Institute of Technology, Genova 16163, Italy"],"affiliations":[{"raw_affiliation_string":"Molecular Modelling and Drug Discovery, Italian Institute of Technology, Genova 16163, Italy","institution_ids":["https://openalex.org/I30771326"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5043471682","display_name":"Paolo Carloni","orcid":"https://orcid.org/0000-0002-9010-0149"},"institutions":[{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]},{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Paolo Carloni","raw_affiliation_strings":["Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","Department of Physics and Universit\u00e4tsklinikum, RWTH Aachen University, Aachen 52074, Germany"],"affiliations":[{"raw_affiliation_string":"Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum J\u00fclich GmbH, J\u00fclich 52428, Germany","institution_ids":["https://openalex.org/I171892758"]},{"raw_affiliation_string":"Department of Physics and Universit\u00e4tsklinikum, RWTH Aachen University, Aachen 52074, Germany","institution_ids":["https://openalex.org/I887968799"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5043471682","https://openalex.org/A5066715543"],"corresponding_institution_ids":["https://openalex.org/I171892758","https://openalex.org/I887968799"],"apc_list":null,"apc_paid":null,"fwci":8.1075,"has_fulltext":true,"cited_by_count":53,"citation_normalized_percentile":{"value":0.98119137,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"63","issue":"12","first_page":"3647","last_page":"3658"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9984999895095825,"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":0.9984999895095825,"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":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11178","display_name":"Receptor Mechanisms and Signaling","score":0.9900000095367432,"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/massively-parallel","display_name":"Massively parallel","score":0.7583762407302856},{"id":"https://openalex.org/keywords/exascale-computing","display_name":"Exascale computing","score":0.6164435148239136},{"id":"https://openalex.org/keywords/perspective","display_name":"Perspective (graphical)","score":0.5925431847572327},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5419110059738159},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.508628249168396},{"id":"https://openalex.org/keywords/supercomputer","display_name":"Supercomputer","score":0.3608778715133667},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.08124840259552002}],"concepts":[{"id":"https://openalex.org/C190475519","wikidata":"https://www.wikidata.org/wiki/Q544384","display_name":"Massively parallel","level":2,"score":0.7583762407302856},{"id":"https://openalex.org/C2778837361","wikidata":"https://www.wikidata.org/wiki/Q2450880","display_name":"Exascale computing","level":3,"score":0.6164435148239136},{"id":"https://openalex.org/C12713177","wikidata":"https://www.wikidata.org/wiki/Q1900281","display_name":"Perspective (graphical)","level":2,"score":0.5925431847572327},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5419110059738159},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.508628249168396},{"id":"https://openalex.org/C83283714","wikidata":"https://www.wikidata.org/wiki/Q121117","display_name":"Supercomputer","level":2,"score":0.3608778715133667},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.08124840259552002}],"mesh":[{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","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":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","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":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1021/acs.jcim.3c00557","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.3c00557","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.3c00557","source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:37319347","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37319347","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":"Journal of chemical information and modeling","raw_type":null},{"id":"pmh:oai:boa.unimib.it:10281/439138","is_oa":true,"landing_page_url":"https://hdl.handle.net/10281/439138","pdf_url":"https://boa.unimib.it/bitstream/10281/439138/2/10281-439138_VoR.pdf","source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"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":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10302481","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10302481","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10302481/pdf/ci3c00557.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Chem Inf Model","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1021/acs.jcim.3c00557","is_oa":true,"landing_page_url":"https://doi.org/10.1021/acs.jcim.3c00557","pdf_url":"https://pubs.acs.org/doi/pdf/10.1021/acs.jcim.3c00557","source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320876","display_name":"Helmholtz-Gemeinschaft","ror":"https://ror.org/0281dp749"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4380852853.pdf","grobid_xml":"https://content.openalex.org/works/W4380852853.grobid-xml"},"referenced_works_count":127,"referenced_works":["https://openalex.org/W1031578623","https://openalex.org/W1624860839","https://openalex.org/W1965851511","https://openalex.org/W1965909642","https://openalex.org/W1975732928","https://openalex.org/W1976462601","https://openalex.org/W1980179156","https://openalex.org/W1988091937","https://openalex.org/W1997785740","https://openalex.org/W1998484176","https://openalex.org/W2001399809","https://openalex.org/W2002303369","https://openalex.org/W2004303971","https://openalex.org/W2004822259","https://openalex.org/W2011091008","https://openalex.org/W2012369631","https://openalex.org/W2015964119","https://openalex.org/W2016408686","https://openalex.org/W2017662234","https://openalex.org/W2018164461","https://openalex.org/W2018948641","https://openalex.org/W2019555480","https://openalex.org/W2021220203","https://openalex.org/W2023175956","https://openalex.org/W2025511405","https://openalex.org/W2025962852","https://openalex.org/W2031559458","https://openalex.org/W2031597111","https://openalex.org/W2032681002","https://openalex.org/W2032731042","https://openalex.org/W2032882684","https://openalex.org/W2036848594","https://openalex.org/W2040809566","https://openalex.org/W2041753261","https://openalex.org/W2043377643","https://openalex.org/W2044947801","https://openalex.org/W2048180102","https://openalex.org/W2055808883","https://openalex.org/W2056206819","https://openalex.org/W2062930790","https://openalex.org/W2072458217","https://openalex.org/W2075270537","https://openalex.org/W2075596308","https://openalex.org/W2080452140","https://openalex.org/W2092157292","https://openalex.org/W2101217381","https://openalex.org/W2103998081","https://openalex.org/W2110872379","https://openalex.org/W2132262459","https://openalex.org/W2141670002","https://openalex.org/W2141838908","https://openalex.org/W2153738830","https://openalex.org/W2166298091","https://openalex.org/W2169301285","https://openalex.org/W2207535250","https://openalex.org/W2219836394","https://openalex.org/W2313116527","https://openalex.org/W2322557975","https://openalex.org/W2325702925","https://openalex.org/W2341951168","https://openalex.org/W2394502486","https://openalex.org/W2400378658","https://openalex.org/W2554932040","https://openalex.org/W2611322805","https://openalex.org/W2626135170","https://openalex.org/W2735946350","https://openalex.org/W2766733553","https://openalex.org/W2785841326","https://openalex.org/W2798017727","https://openalex.org/W2888949908","https://openalex.org/W2895466983","https://openalex.org/W2912594620","https://openalex.org/W2936390190","https://openalex.org/W2945432543","https://openalex.org/W2972712857","https://openalex.org/W2981330135","https://openalex.org/W2985776732","https://openalex.org/W2988055229","https://openalex.org/W3003009827","https://openalex.org/W3006008127","https://openalex.org/W3008003415","https://openalex.org/W3012894606","https://openalex.org/W3014235255","https://openalex.org/W3016040575","https://openalex.org/W3016932526","https://openalex.org/W3017260797","https://openalex.org/W3020059849","https://openalex.org/W3027308092","https://openalex.org/W3030008171","https://openalex.org/W3043528025","https://openalex.org/W3046216634","https://openalex.org/W3046751266","https://openalex.org/W3092772751","https://openalex.org/W3098321015","https://openalex.org/W3104651685","https://openalex.org/W3108516116","https://openalex.org/W3112599892","https://openalex.org/W3121692464","https://openalex.org/W3147109724","https://openalex.org/W3155612668","https://openalex.org/W3158281826","https://openalex.org/W3168813651","https://openalex.org/W3176207262","https://openalex.org/W3189185533","https://openalex.org/W3201346807","https://openalex.org/W3207730481","https://openalex.org/W3210911584","https://openalex.org/W4205627056","https://openalex.org/W4210676315","https://openalex.org/W4214742297","https://openalex.org/W4220982735","https://openalex.org/W4221147630","https://openalex.org/W4281253972","https://openalex.org/W4281643637","https://openalex.org/W4285744851","https://openalex.org/W4288010039","https://openalex.org/W4294310550","https://openalex.org/W4302362355","https://openalex.org/W4313466154","https://openalex.org/W4313592296","https://openalex.org/W4318692572","https://openalex.org/W4319162181","https://openalex.org/W4320709318","https://openalex.org/W4321490676","https://openalex.org/W4323026769","https://openalex.org/W4386592248","https://openalex.org/W6931645087"],"related_works":["https://openalex.org/W2073684863","https://openalex.org/W1599154403","https://openalex.org/W2023839151","https://openalex.org/W1774183074","https://openalex.org/W2057488824","https://openalex.org/W4318068934","https://openalex.org/W2334687145","https://openalex.org/W2290952066","https://openalex.org/W2178011914","https://openalex.org/W4235962491"],"abstract_inverted_index":{"The":[0],"initial":[1],"phases":[2],"of":[3,76,81,99,109,139,151,158],"drug":[4,9],"discovery":[5],"-":[6,11,56,64],"<i>in":[7],"silico</i>":[8],"design":[10],"could":[12],"benefit":[13],"from":[14],"first":[15,46,87,147],"principle":[16,47,88],"Quantum":[17],"Mechanics/Molecular":[18],"Mechanics":[19],"(QM/MM)":[20],"molecular":[21],"dynamics":[22],"(MD)":[23],"simulations":[24,154],"in":[25,117,137],"explicit":[26],"solvent,":[27],"yet":[28],"many":[29,166],"applications":[30,177],"are":[31],"currently":[32],"limited":[33],"by":[34,178],"the":[35,71,74,77,97,107,128,146,168],"short":[36],"time":[37,148],"scales":[38],"that":[39],"this":[40,68],"approach":[41],"can":[42],"cover.":[43],"Developing":[44],"scalable":[45,114],"QM/MM":[48,121],"MD":[49,153],"interfaces":[50],"fully":[51],"exploiting":[52],"current":[53],"exascale":[54,176,189],"machines":[55],"so":[57],"far":[58],"an":[59],"unmet":[60],"and":[61,79,134],"crucial":[62],"goal":[63],"will":[65],"help":[66],"overcome":[67],"problem,":[69],"opening":[70],"way":[72],"to":[73,84,126,131,161],"study":[75],"thermodynamics":[78],"kinetics":[80],"ligand":[82,135],"binding":[83,136],"protein":[85],"with":[86,101,155,182],"accuracy.":[89],"Here,":[90],"taking":[91],"two":[92],"relevant":[93],"case":[94],"studies":[95],"involving":[96],"interactions":[98],"ligands":[100],"rather":[102],"large":[103],"enzymes,":[104],"we":[105],"showcase":[106],"use":[108],"our":[110],"recently":[111],"developed":[112],"massively":[113],"Multiscale":[115],"Modeling":[116],"Computational":[118],"Chemistry":[119],"(MiMiC)":[120],"framework":[122],"(currently":[123],"using":[124],"DFT":[125],"describe":[127],"QM":[129],"region)":[130],"investigate":[132],"reactions":[133],"enzymes":[138],"pharmacological":[140],"relevance.":[141],"We":[142],"also":[143],"demonstrate":[144],"for":[145,188],"strong":[149],"scaling":[150],"MiMiC-QM/MM":[152],"parallel":[156],"efficiency":[157],"\u223c70%":[159],"up":[160],">80,000":[162],"cores.":[163],"Thus,":[164],"among":[165],"others,":[167],"MiMiC":[169],"interface":[170],"represents":[171],"a":[172],"promising":[173],"candidate":[174],"toward":[175],"combining":[179],"machine":[180],"learning":[181],"statistical":[183],"mechanics":[184],"based":[185],"algorithms":[186],"tailored":[187],"supercomputers.":[190]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":18},{"year":2024,"cited_by_count":25},{"year":2023,"cited_by_count":6}],"updated_date":"2026-04-06T07:47:59.780226","created_date":"2025-10-10T00:00:00"}
