{"id":"https://openalex.org/W2066400775","doi":"https://doi.org/10.1021/ci9603487","title":"BALI: Automatic Assignment of Bond and Atom Types for Protein Ligands in the Brookhaven Protein Databank","display_name":"BALI: Automatic Assignment of Bond and Atom Types for Protein Ligands in the Brookhaven Protein Databank","publication_year":1997,"publication_date":"1997-07-01","ids":{"openalex":"https://openalex.org/W2066400775","doi":"https://doi.org/10.1021/ci9603487","mag":"2066400775"},"language":"en","primary_location":{"id":"doi:10.1021/ci9603487","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci9603487","pdf_url":null,"source":{"id":"https://openalex.org/S171559003","display_name":"Journal of Chemical Information and Computer Sciences","issn_l":"0095-2338","issn":["0095-2338","1520-5142"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Computer Sciences","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019548966","display_name":"Manfred Hendlich","orcid":null},"institutions":[{"id":"https://openalex.org/I164928964","display_name":"Merck KGaA, Darmstadt (Germany)","ror":"https://ror.org/04b2dty93","country_code":"DE","type":"company","lineage":["https://openalex.org/I164928964"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"M. Hendlich","raw_affiliation_strings":["Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany","institution_ids":["https://openalex.org/I164928964"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013173045","display_name":"Friedrich Rippmann","orcid":"https://orcid.org/0000-0002-4604-9251"},"institutions":[{"id":"https://openalex.org/I164928964","display_name":"Merck KGaA, Darmstadt (Germany)","ror":"https://ror.org/04b2dty93","country_code":"DE","type":"company","lineage":["https://openalex.org/I164928964"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"F. Rippmann","raw_affiliation_strings":["Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany","institution_ids":["https://openalex.org/I164928964"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029151084","display_name":"Gerhard Barnickel","orcid":null},"institutions":[{"id":"https://openalex.org/I164928964","display_name":"Merck KGaA, Darmstadt (Germany)","ror":"https://ror.org/04b2dty93","country_code":"DE","type":"company","lineage":["https://openalex.org/I164928964"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"G. Barnickel","raw_affiliation_strings":["Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Preclinical Research, Merck KGaA, 64271 Darmstadt, Germany","institution_ids":["https://openalex.org/I164928964"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I164928964"],"apc_list":null,"apc_paid":null,"fwci":1.5321,"has_fulltext":false,"cited_by_count":40,"citation_normalized_percentile":{"value":0.82501011,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"37","issue":"4","first_page":"774","last_page":"778"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9987999796867371,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9987999796867371,"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/T10252","display_name":"Microbial Natural Products and Biosynthesis","score":0.9972000122070312,"subfield":{"id":"https://openalex.org/subfields/2736","display_name":"Pharmacology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9969000220298767,"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/national-laboratory","display_name":"National laboratory","score":0.6762460470199585},{"id":"https://openalex.org/keywords/atom","display_name":"Atom (system on chip)","score":0.6214350461959839},{"id":"https://openalex.org/keywords/bond-length","display_name":"Bond length","score":0.5805185437202454},{"id":"https://openalex.org/keywords/ring","display_name":"Ring (chemistry)","score":0.5552955865859985},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.4844122529029846},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.43713492155075073},{"id":"https://openalex.org/keywords/molecule","display_name":"Molecule","score":0.4116182327270508},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.2349628210067749},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.23169741034507751},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.11392417550086975},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.06375917792320251}],"concepts":[{"id":"https://openalex.org/C2991948145","wikidata":"https://www.wikidata.org/wiki/Q16801175","display_name":"National laboratory","level":2,"score":0.6762460470199585},{"id":"https://openalex.org/C58312451","wikidata":"https://www.wikidata.org/wiki/Q4817200","display_name":"Atom (system on chip)","level":2,"score":0.6214350461959839},{"id":"https://openalex.org/C155860418","wikidata":"https://www.wikidata.org/wiki/Q863695","display_name":"Bond length","level":3,"score":0.5805185437202454},{"id":"https://openalex.org/C2780378348","wikidata":"https://www.wikidata.org/wiki/Q25351438","display_name":"Ring (chemistry)","level":2,"score":0.5552955865859985},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4844122529029846},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.43713492155075073},{"id":"https://openalex.org/C32909587","wikidata":"https://www.wikidata.org/wiki/Q11369","display_name":"Molecule","level":2,"score":0.4116182327270508},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.2349628210067749},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.23169741034507751},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.11392417550086975},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.06375917792320251},{"id":"https://openalex.org/C61696701","wikidata":"https://www.wikidata.org/wiki/Q770766","display_name":"Engineering physics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1021/ci9603487","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci9603487","pdf_url":null,"source":{"id":"https://openalex.org/S171559003","display_name":"Journal of Chemical Information and Computer Sciences","issn_l":"0095-2338","issn":["0095-2338","1520-5142"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Computer Sciences","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":9,"referenced_works":["https://openalex.org/W1966041739","https://openalex.org/W1975147762","https://openalex.org/W1979841039","https://openalex.org/W2039106207","https://openalex.org/W2042910991","https://openalex.org/W2049126012","https://openalex.org/W2093338340","https://openalex.org/W2134587536","https://openalex.org/W2159081899"],"related_works":["https://openalex.org/W4386053707","https://openalex.org/W2341184295","https://openalex.org/W306539506","https://openalex.org/W14298219","https://openalex.org/W4234073326","https://openalex.org/W2129585587","https://openalex.org/W1972804960","https://openalex.org/W2998628374","https://openalex.org/W228870880","https://openalex.org/W2326418715"],"abstract_inverted_index":{"A":[0],"method":[1],"for":[2,82],"assigning":[3],"hybridization":[4],"states":[5,65],"and":[6,32,39,66,101,107],"bond":[7,37,40,67,106],"orders":[8,68],"to":[9,92,102],"protein":[10,94],"ligands":[11,95],"from":[12],"the":[13,26,48,97],"Brookhaven":[14,98],"Protein":[15,99],"Databank":[16,100],"1":[17],"is":[18,23,91],"presented.":[19],"The":[20,86],"assignment":[21],"procedure":[22],"based":[24],"on":[25,33,47],"recognition":[27],"of":[28,36,51,89,114],"simple":[29],"chemical":[30],"groups":[31],"an":[34],"analysis":[35],"length":[38],"angle":[41],"data.":[42],"Special":[43],"care":[44],"was":[45],"taken":[46],"proper":[49],"handling":[50],"aromatic":[52],"heterocyclic":[53],"ring":[54],"systems":[55],"which":[56],"are":[57,69],"frequently":[58],"found":[59],"in":[60,96],"small":[61],"molecule":[62],"ligands.":[63],"Hybridization":[64],"assigned":[70],"with":[71,110],"a":[72,111],"success":[73],"rate":[74],"significantly":[75],"higher":[76],"than":[77],"what":[78],"has":[79],"been":[80],"reported":[81],"previously":[83],"published":[84],"algorithms.":[85],"main":[87],"application":[88],"BALI":[90],"identify":[93],"add":[103],"information":[104],"about":[105],"atom":[108],"types":[109],"minimum":[112],"amount":[113],"manual":[115],"intervention.":[116]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":4}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
