• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (4834086)   Today's Articles (5714)
For: Durniak KJ, Bailey S, Steitz TA. The structure of a transcribing T7 RNA polymerase in transition from initiation to elongation. Science 2008;322:553-7. [PMID: 18948533 DOI: 10.1126/science.1163433] [Citation(s) in RCA: 90] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Number Cited by Other Article(s)
51
Velazquez G, Sousa R, Brieba LG. The thumb subdomain of yeast mitochondrial RNA polymerase is involved in processivity, transcript fidelity and mitochondrial transcription factor binding. RNA Biol 2016;12:514-24. [PMID: 25654332 DOI: 10.1080/15476286.2015.1014283] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]  Open
52
Chen M, Xu J, Yao H, Lu C, Zhang W. Isolation, genome sequencing and functional analysis of two T7-like coliphages of avian pathogenic Escherichia coli. Gene 2016;582:47-58. [PMID: 26828615 DOI: 10.1016/j.gene.2016.01.049] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2015] [Revised: 01/09/2016] [Accepted: 01/28/2016] [Indexed: 01/21/2023]
53
Senavirathne G, Bertram JG, Jaszczur M, Chaurasiya KR, Pham P, Mak CH, Goodman MF, Rueda D. Activation-induced deoxycytidine deaminase (AID) co-transcriptional scanning at single-molecule resolution. Nat Commun 2015;6:10209. [PMID: 26681117 PMCID: PMC4703863 DOI: 10.1038/ncomms10209] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2014] [Accepted: 11/13/2015] [Indexed: 12/20/2022]  Open
54
Guo F, Zhou W, Li P, Mao Z, Yennawar N, French JB, Jun Huang T. Precise Manipulation and Patterning of Protein Crystals for Macromolecular Crystallography Using Surface Acoustic Waves. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2015;11:2733-7. [PMID: 25641793 PMCID: PMC4478196 DOI: 10.1002/smll.201403262] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Revised: 12/19/2014] [Indexed: 05/20/2023]
55
Deshpande AP, Patel SS. Interactions of the yeast mitochondrial RNA polymerase with the +1 and +2 promoter bases dictate transcription initiation efficiency. Nucleic Acids Res 2014;42:11721-32. [PMID: 25249624 PMCID: PMC4191429 DOI: 10.1093/nar/gku868] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
56
Drakulic S, Wang L, Cuéllar J, Guo Q, Velázquez G, Martín-Benito J, Sousa R, Valpuesta JM. Yeast mitochondrial RNAP conformational changes are regulated by interactions with the mitochondrial transcription factor. Nucleic Acids Res 2014;42:11246-60. [PMID: 25183523 PMCID: PMC4176174 DOI: 10.1093/nar/gku795] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]  Open
57
Tang GQ, Nandakumar D, Bandwar RP, Lee KS, Roy R, Ha T, Patel SS. Relaxed rotational and scrunching changes in P266L mutant of T7 RNA polymerase reduce short abortive RNAs while delaying transition into elongation. PLoS One 2014;9:e91859. [PMID: 24651161 PMCID: PMC3961267 DOI: 10.1371/journal.pone.0091859] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2013] [Accepted: 02/14/2014] [Indexed: 12/02/2022]  Open
58
Fluorescent methods to study transcription initiation and transition into elongation. EXPERIENTIA SUPPLEMENTUM (2012) 2014;105:105-30. [PMID: 25095993 PMCID: PMC4430081 DOI: 10.1007/978-3-0348-0856-9_6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
59
Lysis delay and burst shrinkage of coliphage T7 by deletion of terminator Tφ reversed by deletion of early genes. J Virol 2013;88:2107-15. [PMID: 24335287 DOI: 10.1128/jvi.03274-13] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
60
Theis K. Snapshots of a viral RNA polymerase switching gears from transcription initiation to elongation. Virol Sin 2013;28:337-44. [PMID: 24306760 DOI: 10.1007/s12250-013-3397-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2013] [Accepted: 11/28/2013] [Indexed: 10/25/2022]  Open
61
Wang B, Feig M, Cukier RI, Burton ZF. Computational simulation strategies for analysis of multisubunit RNA polymerases. Chem Rev 2013;113:8546-66. [PMID: 23987500 PMCID: PMC3829680 DOI: 10.1021/cr400046x] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2013] [Indexed: 12/13/2022]
62
Structure of human mitochondrial RNA polymerase elongation complex. Nat Struct Mol Biol 2013;20:1298-303. [PMID: 24096365 PMCID: PMC4321815 DOI: 10.1038/nsmb.2683] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2013] [Accepted: 09/04/2013] [Indexed: 12/22/2022]
63
Samanta S, Martin CT. Insights into the mechanism of initial transcription in Escherichia coli RNA polymerase. J Biol Chem 2013;288:31993-2003. [PMID: 24047893 DOI: 10.1074/jbc.m113.497669] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
64
Boulain JC, Dassa J, Mesta L, Savatier A, Costa N, Muller BH, L'hostis G, Stura EA, Troesch A, Ducancel F. Mutants with higher stability and specific activity from a single thermosensitive variant of T7 RNA polymerase. Protein Eng Des Sel 2013;26:725-34. [PMID: 24006372 DOI: 10.1093/protein/gzt040] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
65
Kamzolova S, Beskaravainy P, Osypov A, Dzhelyadin T, Temlyakova E, Sorokin A. Electrostatic map of T7 DNA: comparative analysis of functional and electrostatic properties of T7 RNA polymerase-specific promoters. J Biomol Struct Dyn 2013;32:1184-92. [DOI: 10.1080/07391102.2013.819298] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
66
Kim S, Broströmer E, Xing D, Jin J, Chong S, Ge H, Wang S, Gu C, Yang L, Gao YQ, Su XD, Sun Y, Xie XS. Probing allostery through DNA. Science 2013;339:816-9. [PMID: 23413354 DOI: 10.1126/science.1229223] [Citation(s) in RCA: 212] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
67
Chang HW, Shaytan AK, Hsieh FK, Kulaeva OI, Kirpichnikov MP, Studitsky VM. Structural Analysis of the Key Intermediate Formed during Transcription through a Nucleosome. TRENDS IN CELL & MOLECULAR BIOLOGY 2013;8:13-23. [PMID: 25364155 PMCID: PMC4214391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
68
Neil AJ, Belotserkovskii BP, Hanawalt PC. Transcription blockage by bulky end termini at single-strand breaks in the DNA template: differential effects of 5' and 3' adducts. Biochemistry 2012;51:8964-70. [PMID: 23066636 DOI: 10.1021/bi301240y] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
69
Martinez-Rucobo FW, Cramer P. Structural basis of transcription elongation. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 2012;1829:9-19. [PMID: 22982352 DOI: 10.1016/j.bbagrm.2012.09.002] [Citation(s) in RCA: 70] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2012] [Revised: 09/06/2012] [Accepted: 09/07/2012] [Indexed: 01/13/2023]
70
Ramírez-Tapia LE, Martin CT. New insights into the mechanism of initial transcription: the T7 RNA polymerase mutant P266L transitions to elongation at longer RNA lengths than wild type. J Biol Chem 2012;287:37352-61. [PMID: 22923611 DOI: 10.1074/jbc.m112.370643] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
71
Vaughan R, Fan B, You JS, Kao CC. Identification and functional characterization of the nascent RNA contacting residues of the hepatitis C virus RNA-dependent RNA polymerase. RNA (NEW YORK, N.Y.) 2012;18:1541-52. [PMID: 22736798 PMCID: PMC3404374 DOI: 10.1261/rna.031914.111] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2011] [Accepted: 05/30/2012] [Indexed: 05/21/2023]
72
Finan K, Torella JP, Kapanidis AN, Cook PR. T7 RNA polymerase functions in vitro without clustering. PLoS One 2012;7:e40207. [PMID: 22768341 PMCID: PMC3388079 DOI: 10.1371/journal.pone.0040207] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2012] [Accepted: 06/06/2012] [Indexed: 11/18/2022]  Open
73
Billingsley DJ, Bonass WA, Crampton N, Kirkham J, Thomson NH. Single-molecule studies of DNA transcription using atomic force microscopy. Phys Biol 2012;9:021001. [PMID: 22473059 DOI: 10.1088/1478-3975/9/2/021001] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
74
Yu J, Oster G. A small post-translocation energy bias aids nucleotide selection in T7 RNA polymerase transcription. Biophys J 2012;102:532-41. [PMID: 22325276 PMCID: PMC3274829 DOI: 10.1016/j.bpj.2011.12.028] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2011] [Revised: 12/14/2011] [Accepted: 12/16/2011] [Indexed: 01/22/2023]  Open
75
Choi KH. Viral polymerases. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2012;726:267-304. [PMID: 22297518 PMCID: PMC4711277 DOI: 10.1007/978-1-4614-0980-9_12] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
76
Real-time monitoring of a stepwise transcription reaction on a quartz-crystal microbalance. Anal Biochem 2011;421:732-41. [PMID: 22182728 DOI: 10.1016/j.ab.2011.11.019] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2011] [Revised: 11/18/2011] [Accepted: 11/19/2011] [Indexed: 11/23/2022]
77
Ulrich S, Kool ET. Importance of steric effects on the efficiency and fidelity of transcription by T7 RNA polymerase. Biochemistry 2011;50:10343-9. [PMID: 22044042 DOI: 10.1021/bi2011465] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
78
Park JS, Kim KB, Kim DE. DNA Helicase Reduces Production of Aberrant Run-off Transcripts during in vitro RNA Synthesis with T7 RNA Polymerase. B KOREAN CHEM SOC 2011. [DOI: 10.5012/bkcs.2011.32.10.3779] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
79
Ringel R, Sologub M, Morozov YI, Litonin D, Cramer P, Temiakov D. Structure of human mitochondrial RNA polymerase. Nature 2011;478:269-73. [PMID: 21947009 DOI: 10.1038/nature10435] [Citation(s) in RCA: 156] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2011] [Accepted: 08/10/2011] [Indexed: 11/10/2022]
80
Vahia AV, Martin CT. Direct tests of the energetic basis of abortive cycling in transcription. Biochemistry 2011;50:7015-22. [PMID: 21776950 DOI: 10.1021/bi200620q] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
81
Single Molecule Detection of One, Two and Multiplex Proteins Involved in DNA/RNA Transaction. Cell Mol Bioeng 2011. [DOI: 10.1007/s12195-011-0159-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]  Open
82
Skinner GM, Kalafut BS, Visscher K. Downstream DNA tension regulates the stability of the T7 RNA polymerase initiation complex. Biophys J 2011;100:1034-41. [PMID: 21320448 DOI: 10.1016/j.bpj.2010.11.092] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2010] [Revised: 11/11/2010] [Accepted: 11/15/2010] [Indexed: 11/25/2022]  Open
83
Conde J, de la Fuente JM, Baptista PV. In vitro transcription and translation inhibition via DNA functionalized gold nanoparticles. NANOTECHNOLOGY 2010;21:505101. [PMID: 21098932 DOI: 10.1088/0957-4484/21/50/505101] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
84
Mie M, Sugita R, Endoh T, Kobatake E. Evaluation of small ligand-protein interactions by using T7 RNA polymerase with DNA-modified ligand. Anal Biochem 2010;405:109-13. [PMID: 20553866 DOI: 10.1016/j.ab.2010.06.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2010] [Revised: 05/27/2010] [Accepted: 06/02/2010] [Indexed: 11/26/2022]
85
Stengel G, Urban M, Purse BW, Kuchta RD. Incorporation of the fluorescent ribonucleotide analogue tCTP by T7 RNA polymerase. Anal Chem 2010;82:1082-9. [PMID: 20067253 DOI: 10.1021/ac902456n] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
86
Grünberg S, Reich C, Zeller ME, Bartlett MS, Thomm M. Rearrangement of the RNA polymerase subunit H and the lower jaw in archaeal elongation complexes. Nucleic Acids Res 2009;38:1950-63. [PMID: 20040576 PMCID: PMC2847245 DOI: 10.1093/nar/gkp1190] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]  Open
87
Real-time observation of the transition from transcription initiation to elongation of the RNA polymerase. Proc Natl Acad Sci U S A 2009;106:22175-80. [PMID: 20018723 DOI: 10.1073/pnas.0906979106] [Citation(s) in RCA: 61] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
88
Steitz TA. The structural changes of T7 RNA polymerase from transcription initiation to elongation. Curr Opin Struct Biol 2009;19:683-90. [PMID: 19811903 PMCID: PMC2818687 DOI: 10.1016/j.sbi.2009.09.001] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2009] [Accepted: 09/03/2009] [Indexed: 11/15/2022]
89
Sorokina M, Koh HR, Patel SS, Ha T. Fluorescent lifetime trajectories of a single fluorophore reveal reaction intermediates during transcription initiation. J Am Chem Soc 2009;131:9630-1. [PMID: 19552410 PMCID: PMC2726732 DOI: 10.1021/ja902861f] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
90
Nayak D, Guo Q, Sousa R. A promoter recognition mechanism common to yeast mitochondrial and phage t7 RNA polymerases. J Biol Chem 2009;284:13641-13647. [PMID: 19307179 DOI: 10.1074/jbc.m900718200] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
PrevPage 2 of 2 12Next
© 2004-2025 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA