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For: Kuzmine I, Gottlieb PA, Martin CT. Structure in nascent RNA leads to termination of slippage transcription by T7 RNA polymerase. Nucleic Acids Res 2001;29:2601-6. [PMID: 11410669 PMCID: PMC55752 DOI: 10.1093/nar/29.12.2601] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
Number Cited by Other Article(s)
1
Lobodin KV, Chetverina HV, Chetverin AB. Slippage at the initiation of RNA synthesis by Qβ replicase results in a periodic polyG pattern. FEBS Lett 2023;597:458-471. [PMID: 36477752 DOI: 10.1002/1873-3468.14556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Revised: 10/16/2022] [Accepted: 11/25/2022] [Indexed: 12/13/2022]
2
Takahashi S, Matsumoto S, Chilka P, Ghosh S, Okura H, Sugimoto N. Dielectricity of a molecularly crowded solution accelerates NTP misincorporation during RNA-dependent RNA polymerization by T7 RNA polymerase. Sci Rep 2022;12:1149. [PMID: 35064200 PMCID: PMC8782835 DOI: 10.1038/s41598-022-05136-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 01/06/2022] [Indexed: 11/09/2022]  Open
3
Oh J, Xu J, Chong J, Wang D. Molecular basis of transcriptional pausing, stalling, and transcription-coupled repair initiation. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 2020;1864:194659. [PMID: 33271312 DOI: 10.1016/j.bbagrm.2020.194659] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Revised: 11/21/2020] [Accepted: 11/23/2020] [Indexed: 12/24/2022]
4
Lightfoot HL, Hagen T, Cléry A, Allain FHT, Hall J. Control of the polyamine biosynthesis pathway by G2-quadruplexes. eLife 2018;7:e36362. [PMID: 30063205 PMCID: PMC6067879 DOI: 10.7554/elife.36362] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Accepted: 06/13/2018] [Indexed: 12/16/2022]  Open
5
Hillen HS, Parshin AV, Agaronyan K, Morozov YI, Graber JJ, Chernev A, Schwinghammer K, Urlaub H, Anikin M, Cramer P, Temiakov D. Mechanism of Transcription Anti-termination in Human Mitochondria. Cell 2017;171:1082-1093.e13. [PMID: 29033127 DOI: 10.1016/j.cell.2017.09.035] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Revised: 07/27/2017] [Accepted: 09/18/2017] [Indexed: 11/18/2022]
6
Veerareddygari GR, Mueller EG. Kinetic Isotope Effect Studies to Elucidate the Reaction Mechanism of RNA-Modifying Enzymes. Methods Enzymol 2017;596:523-546. [DOI: 10.1016/bs.mie.2017.07.018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
7
Tateishi-Karimata H, Isono N, Sugimoto N. New insights into transcription fidelity: thermal stability of non-canonical structures in template DNA regulates transcriptional arrest, pause, and slippage. PLoS One 2014;9:e90580. [PMID: 24594642 PMCID: PMC3940900 DOI: 10.1371/journal.pone.0090580] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2013] [Accepted: 02/04/2014] [Indexed: 11/25/2022]  Open
8
Belotserkovskii BP, Mirkin SM, Hanawalt PC. DNA sequences that interfere with transcription: implications for genome function and stability. Chem Rev 2013;113:8620-37. [PMID: 23972098 DOI: 10.1021/cr400078y] [Citation(s) in RCA: 83] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
9
Suppression of Gene Expression by G-Quadruplexes in Open Reading Frames Depends on G-Quadruplex Stability. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201300058] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
10
Endoh T, Kawasaki Y, Sugimoto N. Suppression of gene expression by G-quadruplexes in open reading frames depends on G-quadruplex stability. Angew Chem Int Ed Engl 2013;52:5522-6. [PMID: 23589400 DOI: 10.1002/anie.201300058] [Citation(s) in RCA: 109] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2013] [Revised: 03/04/2013] [Indexed: 12/29/2022]
11
Collie GW, Parkinson GN. The application of DNA and RNA G-quadruplexes to therapeutic medicines. Chem Soc Rev 2011;40:5867-92. [PMID: 21789296 DOI: 10.1039/c1cs15067g] [Citation(s) in RCA: 461] [Impact Index Per Article: 35.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
12
G-quadruplex structures in RNA stimulate mitochondrial transcription termination and primer formation. Proc Natl Acad Sci U S A 2010;107:16072-7. [PMID: 20798345 DOI: 10.1073/pnas.1006026107] [Citation(s) in RCA: 127] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
13
Mechanisms and implications of transcription blockage by guanine-rich DNA sequences. Proc Natl Acad Sci U S A 2010;107:12816-21. [PMID: 20616059 DOI: 10.1073/pnas.1007580107] [Citation(s) in RCA: 114] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
14
Liu X, Martin CT. Transcription elongation complex stability: the topological lock. J Biol Chem 2009;284:36262-36270. [PMID: 19846559 DOI: 10.1074/jbc.m109.056820] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
15
Belotserkovskii BP, De Silva E, Tornaletti S, Wang G, Vasquez KM, Hanawalt PC. A triplex-forming sequence from the human c-MYC promoter interferes with DNA transcription. J Biol Chem 2007;282:32433-41. [PMID: 17785457 DOI: 10.1074/jbc.m704618200] [Citation(s) in RCA: 116] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
16
Nelson DC, Wohlbach DJ, Rodesch MJ, Stolc V, Sussman MR, Samanta MP. Identification of an in vitro transcription-based artifact affecting oligonucleotide microarrays. FEBS Lett 2007;581:3363-70. [PMID: 17604026 DOI: 10.1016/j.febslet.2007.06.033] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2007] [Revised: 05/24/2007] [Accepted: 06/14/2007] [Indexed: 11/26/2022]
17
Lévesque D, Beaudoin JD, Roy S, Perreault JP. In vitro selection and characterization of RNA aptamers binding thyroxine hormone. Biochem J 2007;403:129-38. [PMID: 17163839 PMCID: PMC1828902 DOI: 10.1042/bj20061216] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
18
Mizuta R, Mizuta M, Kitamura D. Guanine is indispensable for immunoglobulin switch region RNA-DNA hybrid formation. Microscopy (Oxf) 2005;54:403-8. [PMID: 16143700 DOI: 10.1093/jmicro/dfi058] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]  Open
19
Kato Y, Minakawa N, Komatsu Y, Kamiya H, Ogawa N, Harashima H, Matsuda A. New NTP analogs: the synthesis of 4'-thioUTP and 4'-thioCTP and their utility for SELEX. Nucleic Acids Res 2005;33:2942-51. [PMID: 15914669 PMCID: PMC1140078 DOI: 10.1093/nar/gki578] [Citation(s) in RCA: 69] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
20
Esposito EA, Martin CT. Cross-linking of promoter DNA to T7 RNA polymerase does not prevent formation of a stable elongation complex. J Biol Chem 2004;279:44270-6. [PMID: 15304497 DOI: 10.1074/jbc.m407688200] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
21
Liu H, Matsugami A, Katahira M, Uesugi S. A dimeric RNA quadruplex architecture comprised of two G:G(:A):G:G(:A) hexads, G:G:G:G tetrads and UUUU loops. J Mol Biol 2002;322:955-70. [PMID: 12367521 DOI: 10.1016/s0022-2836(02)00876-8] [Citation(s) in RCA: 60] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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