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For: Burrows PC, Severinov K, Buck M, Wigneshweraraj SR. Reorganisation of an RNA polymerase-promoter DNA complex for DNA melting. EMBO J 2004;23:4253-63. [PMID: 15470504 PMCID: PMC524386 DOI: 10.1038/sj.emboj.7600406] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2004] [Accepted: 08/17/2004] [Indexed: 11/09/2022]  Open
Number Cited by Other Article(s)
1
Kędzierska-Mieszkowska S. Sigma factors of RNA polymerase in the pathogenic spirochaete Leptospira interrogans, the causative agent of leptospirosis. FASEB J 2023;37:e23163. [PMID: 37688587 DOI: 10.1096/fj.202300252rrr] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2023] [Revised: 07/13/2023] [Accepted: 08/14/2023] [Indexed: 09/11/2023]
2
Sharma A, Leach RN, Gell C, Zhang N, Burrows PC, Shepherd DA, Wigneshweraraj S, Smith DA, Zhang X, Buck M, Stockley PG, Tuma R. Domain movements of the enhancer-dependent sigma factor drive DNA delivery into the RNA polymerase active site: insights from single molecule studies. Nucleic Acids Res 2014;42:5177-90. [PMID: 24553251 PMCID: PMC4005640 DOI: 10.1093/nar/gku146] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
3
Bochkareva A, Zenkin N. The σ70 region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site. Nucleic Acids Res 2013;41:4565-72. [PMID: 23430153 PMCID: PMC3632114 DOI: 10.1093/nar/gkt116] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]  Open
4
The role of bacterial enhancer binding proteins as specialized activators of σ54-dependent transcription. Microbiol Mol Biol Rev 2013;76:497-529. [PMID: 22933558 DOI: 10.1128/mmbr.00006-12] [Citation(s) in RCA: 249] [Impact Index Per Article: 20.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
5
Luo J, Fishburn J, Hahn S, Ranish J. An integrated chemical cross-linking and mass spectrometry approach to study protein complex architecture and function. Mol Cell Proteomics 2011;11:M111.008318. [PMID: 22067100 DOI: 10.1074/mcp.m111.008318] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
6
Ghosh T, Bose D, Zhang X. Mechanisms for activating bacterial RNA polymerase. FEMS Microbiol Rev 2010;34:611-27. [PMID: 20629756 DOI: 10.1111/j.1574-6976.2010.00239.x] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]  Open
7
A prehydrolysis state of an AAA+ ATPase supports transcription activation of an enhancer-dependent RNA polymerase. Proc Natl Acad Sci U S A 2010;107:9376-81. [PMID: 20439713 DOI: 10.1073/pnas.1001188107] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
8
Zhang N, Joly N, Burrows PC, Jovanovic M, Wigneshweraraj SR, Buck M. The role of the conserved phenylalanine in the sigma54-interacting GAFTGA motif of bacterial enhancer binding proteins. Nucleic Acids Res 2009;37:5981-92. [PMID: 19692583 PMCID: PMC2764435 DOI: 10.1093/nar/gkp658] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
9
Burrows PC, Joly N, Nixon BT, Buck M. Comparative analysis of activator-Esigma54 complexes formed with nucleotide-metal fluoride analogues. Nucleic Acids Res 2009;37:5138-50. [PMID: 19553192 PMCID: PMC2731916 DOI: 10.1093/nar/gkp541] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
10
Burrows PC, Schumacher J, Amartey S, Ghosh T, Burgis TA, Zhang X, Nixon BT, Buck M. Functional roles of the pre-sensor I insertion sequence in an AAA+ bacterial enhancer binding protein. Mol Microbiol 2009;73:519-33. [PMID: 19486295 PMCID: PMC2745333 DOI: 10.1111/j.1365-2958.2009.06744.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
11
Peña-Sánchez J, Poggio S, Flores-Pérez U, Osorio A, Domenzain C, Dreyfus G, Camarena L. Identification of the binding site of the σ 54 hetero-oligomeric FleQ/FleT activator in the flagellar promoters of Rhodobacter sphaeroides. Microbiology (Reading) 2009;155:1669-1679. [DOI: 10.1099/mic.0.024455-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
12
Burrows PC, Joly N, Cannon WV, Cámara BP, Rappas M, Zhang X, Dawes K, Nixon BT, Wigneshweraraj SR, Buck M. Coupling sigma factor conformation to RNA polymerase reorganisation for DNA melting. J Mol Biol 2009;387:306-19. [PMID: 19356588 DOI: 10.1016/j.jmb.2009.01.052] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2008] [Revised: 01/24/2009] [Accepted: 01/26/2009] [Indexed: 11/18/2022]
13
Organization of an activator-bound RNA polymerase holoenzyme. Mol Cell 2008;32:337-46. [PMID: 18995832 PMCID: PMC2680985 DOI: 10.1016/j.molcel.2008.09.015] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2008] [Revised: 05/30/2008] [Accepted: 09/05/2008] [Indexed: 12/31/2022]
14
Visualizing the organization and reorganization of transcription complexes for gene expression. Biochem Soc Trans 2008;36:776-9. [PMID: 18631157 DOI: 10.1042/bst0360776] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
15
Schumacher J, Joly N, Claeys-Bouuaert IL, Aziz SA, Rappas M, Zhang X, Buck M. Mechanism of homotropic control to coordinate hydrolysis in a hexameric AAA+ ring ATPase. J Mol Biol 2008;381:1-12. [PMID: 18599077 DOI: 10.1016/j.jmb.2008.05.075] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2008] [Revised: 05/28/2008] [Accepted: 05/29/2008] [Indexed: 11/16/2022]
16
Joly N, Burrows PC, Buck M. An intramolecular route for coupling ATPase activity in AAA+ proteins for transcription activation. J Biol Chem 2008;283:13725-35. [PMID: 18326037 DOI: 10.1074/jbc.m800801200] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
17
Wigneshweraraj S, Bose D, Burrows PC, Joly N, Schumacher J, Rappas M, Pape T, Zhang X, Stockley P, Severinov K, Buck M. Modus operandi of the bacterial RNA polymerase containing the sigma54 promoter-specificity factor. Mol Microbiol 2008;68:538-46. [PMID: 18331472 DOI: 10.1111/j.1365-2958.2008.06181.x] [Citation(s) in RCA: 95] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
18
Dissecting the ATP hydrolysis pathway of bacterial enhancer-binding proteins. Biochem Soc Trans 2008;36:83-8. [PMID: 18208391 DOI: 10.1042/bst0360083] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
19
Protein-DNA interactions that govern AAA+ activator-dependent bacterial transcription initiation. J Mol Biol 2007;375:43-58. [PMID: 18005983 DOI: 10.1016/j.jmb.2007.10.045] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2007] [Revised: 10/04/2007] [Accepted: 10/04/2007] [Indexed: 11/24/2022]
20
Joly N, Rappas M, Wigneshweraraj SR, Zhang X, Buck M. Coupling nucleotide hydrolysis to transcription activation performance in a bacterial enhancer binding protein. Mol Microbiol 2007;66:583-95. [PMID: 17883390 DOI: 10.1111/j.1365-2958.2007.05901.x] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
21
Buck M, Bose D, Burrows P, Cannon W, Joly N, Pape T, Rappas M, Schumacher J, Wigneshweraraj S, Zhang X. A second paradigm for gene activation in bacteria. Biochem Soc Trans 2007;34:1067-71. [PMID: 17073752 DOI: 10.1042/bst0341067] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
22
Schumacher J, Joly N, Rappas M, Bradley D, Wigneshweraraj SR, Zhang X, Buck M. Sensor I threonine of the AAA+ ATPase transcriptional activator PspF is involved in coupling nucleotide triphosphate hydrolysis to the restructuring of sigma 54-RNA polymerase. J Biol Chem 2007;282:9825-9833. [PMID: 17242399 DOI: 10.1074/jbc.m611532200] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
23
Dago AE, Wigneshweraraj SR, Buck M, Morett E. A role for the conserved GAFTGA motif of AAA+ transcription activators in sensing promoter DNA conformation. J Biol Chem 2006;282:1087-97. [PMID: 17090527 DOI: 10.1074/jbc.m608715200] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
24
Joly N, Schumacher J, Buck M. Heterogeneous nucleotide occupancy stimulates functionality of phage shock protein F, an AAA+ transcriptional activator. J Biol Chem 2006;281:34997-5007. [PMID: 16973614 DOI: 10.1074/jbc.m606628200] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
25
Leach RN, Gell C, Wigneshweraraj S, Buck M, Smith A, Stockley PG. Mapping ATP-dependent activation at a sigma54 promoter. J Biol Chem 2006;281:33717-26. [PMID: 16926155 DOI: 10.1074/jbc.m605731200] [Citation(s) in RCA: 15] [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
26
Schumacher J, Joly N, Rappas M, Zhang X, Buck M. Structures and organisation of AAA+ enhancer binding proteins in transcriptional activation. J Struct Biol 2006;156:190-9. [PMID: 16531068 DOI: 10.1016/j.jsb.2006.01.006] [Citation(s) in RCA: 94] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2005] [Revised: 01/16/2006] [Accepted: 01/19/2006] [Indexed: 11/29/2022]
27
Rappas M, Schumacher J, Niwa H, Buck M, Zhang X. Structural basis of the nucleotide driven conformational changes in the AAA+ domain of transcription activator PspF. J Mol Biol 2006;357:481-92. [PMID: 16430918 DOI: 10.1016/j.jmb.2005.12.052] [Citation(s) in RCA: 72] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2005] [Revised: 12/13/2005] [Accepted: 12/13/2005] [Indexed: 11/20/2022]
28
Ray P, Hall RJ, Finn RD, Chen S, Patwardhan A, Buck M, van Heel M. Conformational Changes of Escherichia coli σ54-RNA-Polymerase upon Closed–Promoter Complex Formation. J Mol Biol 2005;354:201-5. [PMID: 16246367 DOI: 10.1016/j.jmb.2005.09.057] [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: 07/28/2005] [Revised: 09/19/2005] [Accepted: 09/20/2005] [Indexed: 10/25/2022]
29
Wigneshweraraj SR, Burrows PC, Severinov K, Buck M. Stable DNA opening within open promoter complexes is mediated by the RNA polymerase beta'-jaw domain. J Biol Chem 2005;280:36176-84. [PMID: 16123036 DOI: 10.1074/jbc.m506416200] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
30
Wigneshweraraj SR, Burrows PC, Bordes P, Schumacher J, Rappas M, Finn RD, Cannon WV, Zhang X, Buck M. The second paradigm for activation of transcription. PROGRESS IN NUCLEIC ACID RESEARCH AND MOLECULAR BIOLOGY 2005;79:339-69. [PMID: 16096032 DOI: 10.1016/s0079-6603(04)79007-8] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
31
Wigneshweraraj SR, Burrows PC, Nechaev S, Zenkin N, Severinov K, Buck M. Regulated communication between the upstream face of RNA polymerase and the beta' subunit jaw domain. EMBO J 2004;23:4264-74. [PMID: 15470503 PMCID: PMC524387 DOI: 10.1038/sj.emboj.7600407] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2004] [Accepted: 08/17/2004] [Indexed: 11/09/2022]  Open
32
Cannon WV, Schumacher J, Buck M. Nucleotide-dependent interactions between a fork junction-RNA polymerase complex and an AAA+ transcriptional activator protein. Nucleic Acids Res 2004;32:4596-608. [PMID: 15333692 PMCID: PMC516047 DOI: 10.1093/nar/gkh755] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2004] [Revised: 07/14/2004] [Accepted: 07/21/2004] [Indexed: 11/12/2022]  Open
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