{"corpus_id":32683843,"paper_sha":"d7f37cc328abc0f3c0c876042a91a03566c280a4","doi":"10.1016/s0021-9258(19)47132-9","arxiv_id":null,"pmid":2479649,"pmcid":null,"mag_id":1591005472,"dblp_id":null,"acl_id":null,"title":"The Salmonella typhimurium his operon leader region contains an RNA hairpin-dependent transcription pause site. Mechanistic implications of the effect on pausing of altered RNA hairpins.","year":1989,"publication_date":"1989-12-05","venue":"Journal of Biological Chemistry","journal":{"name":"The Journal of biological chemistry","pages":"\n          20796-804\n        ","volume":"264 34"},"journal_issn":null,"journal_title":null,"publication_types":["JournalArticle"],"pubmed_pub_types":["Journal Article","Research Support, Non-U.S. Gov't","Research Support, U.S. Gov't, P.H.S."],"s2_fields_of_study":["Biology","Medicine"],"reference_count":5,"citation_count":56,"influential_citation_count":2,"is_open_access":false,"arxiv_categories":null,"arxiv_license":null,"arxiv_journal_ref":null,"mesh_headings":[{"d":"Base Sequence","mj":false,"ui":"D001483"},{"d":"DNA-Directed RNA Polymerases","mj":false,"qs":[{"q":"metabolism","mj":false,"ui":"Q000378"}],"ui":"D012321"},{"d":"Escherichia coli","mj":false,"qs":[{"q":"enzymology","mj":false,"ui":"Q000201"}],"ui":"D004926"},{"d":"Histidine","mj":false,"qs":[{"q":"biosynthesis","mj":true,"ui":"Q000096"}],"ui":"D006639"},{"d":"Kinetics","mj":false,"ui":"D007700"},{"d":"Models, Molecular","mj":false,"ui":"D008958"},{"d":"Molecular Sequence Data","mj":false,"ui":"D008969"},{"d":"Nucleic Acid Conformation","mj":false,"ui":"D009690"},{"d":"Oligonucleotide Probes","mj":false,"qs":[{"q":"chemical synthesis","mj":false,"ui":"Q000138"}],"ui":"D015345"},{"d":"Operon","mj":true,"ui":"D009876"},{"d":"Plasmids","mj":false,"ui":"D010957"},{"d":"RNA, Bacterial","mj":false,"qs":[{"q":"genetics","mj":true,"ui":"Q000235"}],"ui":"D012329"},{"d":"RNA, Messenger","mj":false,"qs":[{"q":"genetics","mj":true,"ui":"Q000235"}],"ui":"D012333"},{"d":"Salmonella typhimurium","mj":false,"qs":[{"q":"genetics","mj":true,"ui":"Q000235"}],"ui":"D012486"},{"d":"Transcription, Genetic","mj":true,"ui":"D014158"}],"chemicals":[{"n":"Oligonucleotide Probes","ui":"D015345","reg":"0"},{"n":"RNA, Bacterial","ui":"D012329","reg":"0"},{"n":"RNA, Messenger","ui":"D012333","reg":"0"},{"n":"Histidine","ui":"D006639","reg":"4QD397987E"},{"n":"DNA-Directed RNA Polymerases","ui":"D012321","reg":"EC 2.7.7.6"}],"comments_corrections":null,"source_flags":5,"s2_open_access_pdf_url":null,"s2_open_access_landing_url":null,"s2_open_access_license":null,"s2_open_access_status":null,"pmc_open_access_pdf_url":null,"pmc_open_access_landing_url":null,"pmc_open_access_license":null,"pmc_open_access_status":null,"unpaywall_open_access_pdf_url":null,"unpaywall_open_access_landing_url":null,"unpaywall_open_access_license":null,"unpaywall_open_access_status":null,"abstract":"The Salmonella typhimurium his leader region contains a well documented transcription attenuator. We report here the results of in vitro transcription studies that characterized a transcription pause site in the his leader region. The pause occurred after synthesis of the first his leader secondary structure (A:B) and immediately preceding addition of G103 to the nascent transcript. RNA polymerase pausing at this site would allow a ribosome synthesizing the his leader peptide to release the paused polymerase and synchronize transcription and translation of the his leader region. The half-life of transcription complexes paused in the his leader was enhanced by NusA, but not guanosine 5'-diphosphate 3'-diphosphate. Nuclease digestion and RNA modeling studies were consistent with a compact three-dimensional structure for the his pause RNA. The half-life of the his leader paused transcription complex was decreased greatly on altered templates in which the C71-G93 base pair was disrupted but was unchanged when the C65-G100 base pair was disrupted. This result is consistent with a model for the structure of paused transcription complexes in which a portion of the RNA:DNA elongation heteroduplex is retained.","claims":[{"public_id":"cl_0500331828ae1132c0857553199d923b","status":"active","text":"A transcription pause site in the his leader region occurs after synthesis of the first his leader secondary structure (A:B) and immediately before addition of G103 to the nascent transcript.","confidence":0.96,"contributors":[{"id":35,"public_id":"b2adb6bfad","public_label":"Anonymous (b2adb6bfad)","roles":["extraction"],"url":"https://sah.borca.ai/u/b2adb6bfad"},{"id":2,"public_id":"4715169a40","public_label":"AK (4715169a40)","roles":["review"],"url":"https://sah.borca.ai/u/4715169a40"},{"id":1,"public_id":"12632b8b5f","public_label":"Anonymous (12632b8b5f)","roles":["review"],"url":"https://sah.borca.ai/u/12632b8b5f"}],"url":"https://sah.borca.ai/claims/cl_0500331828ae1132c0857553199d923b"},{"public_id":"cl_d57819c5b21332932b4c2eaa4d785e5d","status":"active","text":"Disrupting the C71-G93 base pair greatly decreased the half-life of the his leader paused transcription complex, while disrupting the C65-G100 base pair left it unchanged, supporting retention of part of the RNA:DNA elongation heteroduplex.","confidence":0.94,"contributors":[{"id":35,"public_id":"b2adb6bfad","public_label":"Anonymous (b2adb6bfad)","roles":["extraction"],"url":"https://sah.borca.ai/u/b2adb6bfad"},{"id":2,"public_id":"4715169a40","public_label":"AK (4715169a40)","roles":["review"],"url":"https://sah.borca.ai/u/4715169a40"},{"id":1,"public_id":"12632b8b5f","public_label":"Anonymous 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his leader, whereas guanosine 5'-diphosphate 3'-diphosphate did not.","confidence":0.96,"contributors":[{"id":35,"public_id":"b2adb6bfad","public_label":"Anonymous (b2adb6bfad)","roles":["extraction"],"url":"https://sah.borca.ai/u/b2adb6bfad"},{"id":2,"public_id":"4715169a40","public_label":"AK (4715169a40)","roles":["review"],"url":"https://sah.borca.ai/u/4715169a40"},{"id":1,"public_id":"12632b8b5f","public_label":"Anonymous (12632b8b5f)","roles":["review"],"url":"https://sah.borca.ai/u/12632b8b5f"}],"url":"https://sah.borca.ai/claims/cl_08a1cf5b9c971fd82c5f521756531881"},{"public_id":"cl_223540582c72631c6a13311e4e5224a7","status":"active","text":"RNA polymerase pausing at the his leader pause site could allow a ribosome synthesizing the his leader peptide to release the paused polymerase and synchronize transcription with translation.","confidence":0.88,"contributors":[{"id":35,"public_id":"b2adb6bfad","public_label":"Anonymous 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