{"id":"https://openalex.org/W3201227445","doi":"https://doi.org/10.1093/bioinformatics/btab667","title":"ATPdock: a template-based method for ATP-specific protein\u2013ligand docking","display_name":"ATPdock: a template-based method for ATP-specific protein\u2013ligand docking","publication_year":2021,"publication_date":"2021-09-18","ids":{"openalex":"https://openalex.org/W3201227445","doi":"https://doi.org/10.1093/bioinformatics/btab667","mag":"3201227445","pmid":"https://pubmed.ncbi.nlm.nih.gov/34546290"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab667","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab667","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/556/49006544/btab667.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/556/49006544/btab667.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003318936","display_name":"Liang Rao","orcid":null},"institutions":[{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Liang Rao","raw_affiliation_strings":["College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China","institution_ids":["https://openalex.org/I55712492"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037924538","display_name":"Ning-Xin Jia","orcid":null},"institutions":[{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ning-Xin Jia","raw_affiliation_strings":["College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China","institution_ids":["https://openalex.org/I55712492"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029914279","display_name":"Jun Hu","orcid":"https://orcid.org/0000-0001-9202-7515"},"institutions":[{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jun Hu","raw_affiliation_strings":["College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China"],"raw_orcid":"https://orcid.org/0000-0001-9202-7515","affiliations":[{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China","institution_ids":["https://openalex.org/I55712492"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008960436","display_name":"Dong\u2010Jun Yu","orcid":"https://orcid.org/0000-0002-6786-8053"},"institutions":[{"id":"https://openalex.org/I36399199","display_name":"Nanjing University of Science and Technology","ror":"https://ror.org/00xp9wg62","country_code":"CN","type":"education","lineage":["https://openalex.org/I36399199"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Dong-Jun Yu","raw_affiliation_strings":["School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China"],"raw_orcid":"https://orcid.org/0000-0002-6786-8053","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China","institution_ids":["https://openalex.org/I36399199"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049735973","display_name":"Guijun Zhang","orcid":"https://orcid.org/0000-0002-7815-5884"},"institutions":[{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Gui-Jun Zhang","raw_affiliation_strings":["College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China"],"raw_orcid":"https://orcid.org/0000-0002-7815-5884","affiliations":[{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology , Hangzhou 310023, China","institution_ids":["https://openalex.org/I55712492"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5008960436","https://openalex.org/A5029914279","https://openalex.org/A5049735973"],"corresponding_institution_ids":["https://openalex.org/I36399199","https://openalex.org/I55712492"],"apc_list":{"value":3478,"currency":"USD","value_usd":3478},"apc_paid":null,"fwci":0.373,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.56119781,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"38","issue":"2","first_page":"556","last_page":"558"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.5852000117301941,"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":0.5852000117301941,"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":0.14720000326633453,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.13429999351501465,"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/docking","display_name":"Docking (animal)","score":0.8485777378082275},{"id":"https://openalex.org/keywords/protein\u2013ligand-docking","display_name":"Protein\u2013ligand docking","score":0.8058093786239624},{"id":"https://openalex.org/keywords/autodock","display_name":"AutoDock","score":0.7845114469528198},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5557860732078552},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.4544622302055359},{"id":"https://openalex.org/keywords/searching-the-conformational-space-for-docking","display_name":"Searching the conformational space for docking","score":0.4526287913322449},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.4361271262168884},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.4171191453933716},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4141163229942322},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4082475006580353},{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.33270812034606934},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.287431538105011},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2186579704284668},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.19974285364151}],"concepts":[{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.8485777378082275},{"id":"https://openalex.org/C77319485","wikidata":"https://www.wikidata.org/wiki/Q7251520","display_name":"Protein\u2013ligand docking","level":4,"score":0.8058093786239624},{"id":"https://openalex.org/C2780152424","wikidata":"https://www.wikidata.org/wiki/Q4826062","display_name":"AutoDock","level":4,"score":0.7845114469528198},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5557860732078552},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.4544622302055359},{"id":"https://openalex.org/C44695244","wikidata":"https://www.wikidata.org/wiki/Q7441727","display_name":"Searching the conformational space for docking","level":3,"score":0.4526287913322449},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.4361271262168884},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.4171191453933716},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4141163229942322},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4082475006580353},{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.33270812034606934},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.287431538105011},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2186579704284668},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.19974285364151},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"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":"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":"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":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btab667","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab667","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/556/49006544/btab667.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34546290","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34546290","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":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab667","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab667","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/556/49006544/btab667.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Affordable and clean energy","score":0.5099999904632568,"id":"https://metadata.un.org/sdg/7"}],"awards":[{"id":"https://openalex.org/G2708836668","display_name":null,"funder_award_id":"61773346","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4599553528","display_name":null,"funder_award_id":"LY21F020025","funder_id":"https://openalex.org/F4320338464","funder_display_name":"Natural Science Foundation of Zhejiang Province"},{"id":"https://openalex.org/G460379816","display_name":null,"funder_award_id":"LZ20F030002","funder_id":"https://openalex.org/F4320338464","funder_display_name":"Natural Science Foundation of Zhejiang Province"},{"id":"https://openalex.org/G571753479","display_name":null,"funder_award_id":"61902352","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7719334545","display_name":"\u9ad8\u7cbe\u5ea6\u591a\u5c3a\u5ea6\u86cb\u767d\u8d28\u6b8b\u57fa\u63a5\u89e6\u56fe\u53ca\u8ddd\u79bb\u56fe\u9884\u6d4b\u7814\u7a76","funder_award_id":"62072243","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G881258454","display_name":null,"funder_award_id":"RF-A20200012","funder_id":"https://openalex.org/F4554350417","funder_display_name":"Fundamental Research Funds for the Provincial Universities of Zhejiang"},{"id":"https://openalex.org/G8879126380","display_name":"\u5927\u89c4\u6a21\u591a\u6e90\u5f02\u8d28\u86cb\u767d\u8d28\u6570\u636e\u6316\u6398\u4e2d\u7684\u82e5\u5e72\u5173\u952e\u95ee\u9898\u7814\u7a76","funder_award_id":"61772273","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320338464","display_name":"Natural Science Foundation of Zhejiang Province","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4554350417","display_name":"Fundamental Research Funds for the Provincial Universities of Zhejiang","ror":"https://ror.org/00ad9ka24"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3201227445.pdf","grobid_xml":"https://content.openalex.org/works/W3201227445.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W1983304433","https://openalex.org/W2042572511","https://openalex.org/W2069152576","https://openalex.org/W2114779636","https://openalex.org/W2134967712","https://openalex.org/W2159560083","https://openalex.org/W2283882050","https://openalex.org/W2785269871","https://openalex.org/W2789748145","https://openalex.org/W2806399642","https://openalex.org/W2898364362","https://openalex.org/W3107636879"],"related_works":["https://openalex.org/W3199423294","https://openalex.org/W2032996922","https://openalex.org/W2766845742","https://openalex.org/W2336040088","https://openalex.org/W2068609125","https://openalex.org/W3113038228","https://openalex.org/W4385073511","https://openalex.org/W2058674645","https://openalex.org/W2010286440","https://openalex.org/W2999342780"],"abstract_inverted_index":{"MOTIVATION:":[0],"Accurately":[1],"identifying":[2],"protein-ATP":[3,39],"binding":[4,30,54],"poses":[5],"is":[6,43,77,97,106,129,158],"significantly":[7,177],"valuable":[8],"for":[9,64],"both":[10],"basic":[11],"structure":[12],"biology":[13],"and":[14,32],"drug":[15],"discovery.":[16],"Although":[17],"many":[18],"docking":[19,40,50,65,124,183],"methods":[20,181],"have":[21],"been":[22],"designed,":[23],"most":[24,83,98],"of":[25,111,126,167],"them":[26],"require":[27],"a":[28,37,47,61,116,133],"user-defined":[29,53],"site":[31,76,90],"are":[33,193],"difficult":[34],"to":[35,45,100,138,144,149,160],"achieve":[36],"high-quality":[38],"result.":[41],"It":[42],"critical":[44],"develop":[46],"protein-ATP-specific":[48],"blind":[49],"method":[51,63],"without":[52],"sites.":[55],"RESULTS:":[56],"Here,":[57],"we":[58],"present":[59],"ATPdock,":[60],"template-based":[62],"ATP":[66,127,142],"into":[67],"protein.":[68],"For":[69],"each":[70],"query":[71],"protein,":[72],"if":[73],"no":[74],"pocket":[75,85,117],"given,":[78],"ATPdock":[79,176],"first":[80],"identifies":[81],"its":[82],"potential":[84],"using":[86,114,131],"ATPbind,":[87],"an":[88],"ATP-binding":[89],"predictor;":[91],"then,":[92],"the":[93,101,109,122,140,145,153,162,165],"template":[94,146,150],"pocket,":[95,105],"which":[96],"similar":[99],"given":[102],"or":[103],"identified":[104],"searched":[107],"from":[108],"database":[110],"pocket-ligand":[112],"structures":[113],"APoc,":[115],"structural":[118,135],"alignment":[119,136],"tool;":[120],"thirdly,":[121],"rough":[123],"pose":[125,143],"(rdATP)":[128],"generated":[130],"LS-align,":[132],"ligand":[134,147],"tool,":[137],"align":[139],"initial":[141],"corresponding":[148],"pocket;":[151],"finally,":[152],"Metropolis":[154],"Monte":[155],"Carlo":[156],"simulation":[157],"used":[159],"fine-tune":[161],"rdATP":[163],"under":[164],"guidance":[166],"AutoDock":[168],"Vina":[169],"energy":[170],"function.":[171],"Benchmark":[172],"tests":[173],"show":[174],"that":[175],"outperforms":[178],"other":[179],"state-of-the-art":[180],"in":[182],"accuracy.":[184],"AVAILABILITY":[185],"AND":[186],"IMPLEMENTATION:":[187],"https://jun-csbio.github.io/atpdock/.":[188],"SUPPLEMENTARY":[189],"INFORMATION:":[190],"Supplementary":[191],"data":[192],"available":[194],"at":[195],"Bioinformatics":[196],"online.":[197]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1}],"updated_date":"2026-08-29T07:29:34.045763","created_date":"2025-10-10T00:00:00"}
