{"id":"https://openalex.org/W2057565629","doi":"https://doi.org/10.1021/ja046843y","title":"Designer Ribozymes: Programming the tRNA Specificity into Flexizyme","display_name":"Designer Ribozymes: Programming the tRNA Specificity into Flexizyme","publication_year":2004,"publication_date":"2004-08-28","ids":{"openalex":"https://openalex.org/W2057565629","doi":"https://doi.org/10.1021/ja046843y","mag":"2057565629","pmid":"https://pubmed.ncbi.nlm.nih.gov/15366888"},"language":"en","primary_location":{"id":"doi:10.1021/ja046843y","doi":"https://doi.org/10.1021/ja046843y","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ja046843y","pdf_url":null,"source":{"id":"https://openalex.org/S111155417","display_name":"Journal of the American Chemical Society","issn_l":"0002-7863","issn":["0002-7863","1520-5126","1943-2984"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-a","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"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 the American Chemical Society","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"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/A5016168396","display_name":"Krishna A Ramaswamy","orcid":"https://orcid.org/0000-0002-7368-4429","observed_orcids":["https://orcid.org/0000-0002-7368-4429"]},"institutions":[{"id":"https://openalex.org/I42570316","display_name":"Japanese Foundation For Cancer Research","ror":"https://ror.org/00bv64a69","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I42570316"]},{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Krishna Ramaswamy","raw_affiliation_strings":["Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan","institution_ids":["https://openalex.org/I42570316","https://openalex.org/I63190737","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067635025","display_name":"Hirohide Saito","orcid":"https://orcid.org/0000-0002-8570-5784","observed_orcids":["https://orcid.org/0000-0002-8570-5784"]},"institutions":[{"id":"https://openalex.org/I42570316","display_name":"Japanese Foundation For Cancer Research","ror":"https://ror.org/00bv64a69","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I42570316"]},{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Hirohide Saito","raw_affiliation_strings":["Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan","institution_ids":["https://openalex.org/I42570316","https://openalex.org/I63190737","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076038052","display_name":"Hiroshi Murakami","orcid":"https://orcid.org/0000-0003-2089-9263","observed_orcids":["https://orcid.org/0000-0003-2089-9263","https://orcid.org/0009-0006-7361-2018"]},"institutions":[{"id":"https://openalex.org/I42570316","display_name":"Japanese Foundation For Cancer Research","ror":"https://ror.org/00bv64a69","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I42570316"]},{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Hiroshi Murakami","raw_affiliation_strings":["Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan","institution_ids":["https://openalex.org/I42570316","https://openalex.org/I63190737","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075255077","display_name":"Kiyotaka Shiba","orcid":"https://orcid.org/0000-0001-6459-0204","observed_orcids":["https://orcid.org/0000-0001-6459-0204"]},"institutions":[{"id":"https://openalex.org/I42570316","display_name":"Japanese Foundation For Cancer Research","ror":"https://ror.org/00bv64a69","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I42570316"]},{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Kiyotaka Shiba","raw_affiliation_strings":["Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan","institution_ids":["https://openalex.org/I42570316","https://openalex.org/I63190737","https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017224243","display_name":"Hiroaki Suga","orcid":"https://orcid.org/0000-0002-5298-9186","observed_orcids":["https://orcid.org/0000-0002-5298-9186"]},"institutions":[{"id":"https://openalex.org/I42570316","display_name":"Japanese Foundation For Cancer Research","ror":"https://ror.org/00bv64a69","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I42570316"]},{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","US"],"is_corresponding":false,"raw_author_name":"Hiroaki Suga","raw_affiliation_strings":["Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Chemistry and Biological Sciences, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, Department of Protein Engineering, The Cancer Institute of Japanese Foundation for Cancer Research, Tokyo, Japan, and Research Center for Advanced Science and Technology, University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan","institution_ids":["https://openalex.org/I42570316","https://openalex.org/I63190737","https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4500,"currency":"USD","value_usd":4500},"apc_paid":null,"fwci":1.3166,"has_fulltext":false,"cited_by_count":38,"citation_normalized_percentile":{"value":0.77063025,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":97},"biblio":{"volume":"126","issue":"37","first_page":"11454","last_page":"11455"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9990000128746033,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9990000128746033,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.00019999999494757503,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":9.999999747378752e-05,"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/trna-specificity","display_name":"tRNA specificity","score":0.7670000195503235},{"id":"https://openalex.org/keywords/acceptor-stem","display_name":"acceptor stem","score":0.7289999723434448},{"id":"https://openalex.org/keywords/aminoacylation","display_name":"aminoacylation","score":0.7549999952316284},{"id":"https://openalex.org/keywords/trna-recognition","display_name":"tRNA recognition","score":0.5640000104904175},{"id":"https://openalex.org/keywords/unnatural-amino-acids","display_name":"unnatural amino acids","score":0.4320000112056732}],"concepts":[{"id":"https://openalex.org/C76346623","wikidata":"https://www.wikidata.org/wiki/Q205858","display_name":"Ribozyme","level":4,"score":0.9370090961456299},{"id":"https://openalex.org/C153957851","wikidata":"https://www.wikidata.org/wiki/Q201448","display_name":"Transfer RNA","level":4,"score":0.8752225637435913},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.747969388961792},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.516323983669281},{"id":"https://openalex.org/C2779315393","wikidata":"https://www.wikidata.org/wiki/Q415968","display_name":"Aminoacyl tRNA synthetase","level":5,"score":0.45299527049064636},{"id":"https://openalex.org/C151238385","wikidata":"https://www.wikidata.org/wiki/Q4746444","display_name":"Aminoacylation","level":5,"score":0.4383160471916199},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4103997051715851},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.38435009121894836},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.36911740899086},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.35954421758651733},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1464904248714447},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.05405092239379883}],"mesh":[{"descriptor_ui":"D000215","descriptor_name":"Acylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012343","descriptor_name":"RNA, Transfer","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012343","descriptor_name":"RNA, Transfer","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012343","descriptor_name":"RNA, Transfer","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D013379","descriptor_name":"Substrate Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016337","descriptor_name":"RNA, Catalytic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016337","descriptor_name":"RNA, Catalytic","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016337","descriptor_name":"RNA, Catalytic","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1021/ja046843y","doi":"https://doi.org/10.1021/ja046843y","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ja046843y","pdf_url":null,"source":{"id":"https://openalex.org/S111155417","display_name":"Journal of the American Chemical Society","issn_l":"0002-7863","issn":["0002-7863","1520-5126","1943-2984"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-a","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"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 the American Chemical Society","raw_type":"journal-article"},{"id":"pmid:15366888","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15366888","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,"listed_in":[],"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 the American Chemical Society","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320309644","display_name":"State University of New York","ror":"https://ror.org/01q1z8k08"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":9,"referenced_works":["https://openalex.org/W1973698125","https://openalex.org/W1977836925","https://openalex.org/W1982366190","https://openalex.org/W2009060714","https://openalex.org/W2016354070","https://openalex.org/W2029181479","https://openalex.org/W2047435453","https://openalex.org/W2050110866","https://openalex.org/W2149005864"],"related_works":["https://openalex.org/W2079723060","https://openalex.org/W2323525559","https://openalex.org/W7214489506","https://openalex.org/W1987177052","https://openalex.org/W2009835795","https://openalex.org/W1992455974","https://openalex.org/W2116361023","https://openalex.org/W4235931464","https://openalex.org/W2047147667","https://openalex.org/W2921220424"],"abstract_inverted_index":{"Fx3":[0],"is":[1,42,60,72,119],"an":[2],"artificial":[3],"ribozyme":[4],"with":[5,12,95],"the":[6,29,45,49,75,78,83,105,109],"ability":[7],"to":[8,24,34,44,57,62,123],"aminoacylate":[9,91],"various":[10],"tRNAs":[11],"phenylalanine":[13],"and":[14,101],"its":[15,35,64,92],"nonnatural":[16,125],"derivatives.":[17],"Herein":[18],"we":[19],"report":[20],"a":[21,37,68,96,120],"simple":[22],"strategy":[23],"build":[25],"tRNA":[26,66,79,94,110],"specificity":[27,100,111],"into":[28,116],"generic":[30],"Fx3,":[31],"by":[32,82],"appending":[33],"3'-end":[36],"tRNA-specific":[38],"sequence":[39],"(TSS),":[40],"which":[41],"complementary":[43],"acceptor":[46,80],"stem":[47,81],"of":[48,77,99],"cognate":[50,65,93],"tRNA.":[51],"This":[52],"new":[53],"designer":[54],"ribozyme,":[55],"referred":[56],"as":[58],"Fx10,":[59,117],"able":[61],"recognize":[63],"via":[67],"10-base-pair":[69],"interaction":[70],"that":[71,88],"formed":[73],"after":[74],"invasion":[76],"TSS.":[84],"We":[85],"have":[86],"demonstrated":[87],"Fx10":[89],"can":[90,112],"high":[97],"degree":[98],"also":[102],"discriminate":[103],"against":[104],"noncognate":[106],"tRNAs.":[107],"Because":[108],"be":[113],"easily":[114],"programmed":[115],"it":[118],"custom-made":[121],"catalyst":[122],"generate":[124],"aminoacyl-tRNAs.":[126]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2014,"cited_by_count":2}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}