메뉴 건너뛰기




Volumn 44, Issue 4, 2011, Pages 635-646

Applied Force Provides Insight into Transcriptional Pausing and Its Modulation by Transcription Factor NusA

Author keywords

[No Author keywords available]

Indexed keywords

RNA POLYMERASE; TRANSCRIPTION ELONGATION FACTOR; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR NUSA; UNCLASSIFIED DRUG;

EID: 81355150826     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2011.09.018     Document Type: Article
Times cited : (41)

References (55)
  • 4
    • 0034691146 scopus 로고    scopus 로고
    • Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals
    • Artsimovitch I., Landick R. Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals. Proc. Natl. Acad. Sci. USA 2000, 97:7090-7095.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 7090-7095
    • Artsimovitch, I.1    Landick, R.2
  • 5
    • 0037133970 scopus 로고    scopus 로고
    • The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand
    • Artsimovitch I., Landick R. The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand. Cell 2002, 109:193-203.
    • (2002) Cell , vol.109 , pp. 193-203
    • Artsimovitch, I.1    Landick, R.2
  • 6
    • 7444253928 scopus 로고    scopus 로고
    • Sequence-dependent kinetic model for transcription elongation by RNA polymerase
    • Bai L., Shundrovsky A., Wang M.D. Sequence-dependent kinetic model for transcription elongation by RNA polymerase. J. Mol. Biol. 2004, 344:335-349.
    • (2004) J. Mol. Biol. , vol.344 , pp. 335-349
    • Bai, L.1    Shundrovsky, A.2    Wang, M.D.3
  • 7
    • 33846958387 scopus 로고    scopus 로고
    • Mechanochemical kinetics of transcription elongation
    • Bai L., Fulbright R.M., Wang M.D. Mechanochemical kinetics of transcription elongation. Phys. Rev. Lett. 2007, 98:068103.
    • (2007) Phys. Rev. Lett. , vol.98 , pp. 068103
    • Bai, L.1    Fulbright, R.M.2    Wang, M.D.3
  • 9
    • 0032079954 scopus 로고    scopus 로고
    • Combinatorial effects of NusA and NusG on transcription elongation and Rho-dependent termination in Escherichia coli
    • Burns C.M., Richardson L.V., Richardson J.P. Combinatorial effects of NusA and NusG on transcription elongation and Rho-dependent termination in Escherichia coli. J. Mol. Biol. 1998, 278:307-316.
    • (1998) J. Mol. Biol. , vol.278 , pp. 307-316
    • Burns, C.M.1    Richardson, L.V.2    Richardson, J.P.3
  • 10
    • 0024408799 scopus 로고
    • 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
    • Chan C.L., Landick R. 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. J. Biol. Chem. 1989, 264:20796-20804.
    • (1989) J. Biol. Chem. , vol.264 , pp. 20796-20804
    • Chan, C.L.1    Landick, R.2
  • 11
    • 33745965527 scopus 로고    scopus 로고
    • Pulling on the nascent RNA during transcription does not alter kinetics of elongation or ubiquitous pausing
    • Dalal R.V., Larson M.H., Neuman K.C., Gelles J., Landick R., Block S.M. Pulling on the nascent RNA during transcription does not alter kinetics of elongation or ubiquitous pausing. Mol. Cell 2006, 23:231-239.
    • (2006) Mol. Cell , vol.23 , pp. 231-239
    • Dalal, R.V.1    Larson, M.H.2    Neuman, K.C.3    Gelles, J.4    Landick, R.5    Block, S.M.6
  • 12
    • 66149143165 scopus 로고    scopus 로고
    • The origin of short transcriptional pauses
    • Depken M., Galburt E.A., Grill S.W. The origin of short transcriptional pauses. Biophys. J. 2009, 96:2189-2193.
    • (2009) Biophys. J. , vol.96 , pp. 2189-2193
    • Depken, M.1    Galburt, E.A.2    Grill, S.W.3
  • 13
    • 32044451311 scopus 로고    scopus 로고
    • Functional interplay between the jaw domain of bacterial RNA polymerase and allele-specific residues in the product RNA-binding pocket
    • Ederth J., Mooney R.A., Isaksson L.A., Landick R. Functional interplay between the jaw domain of bacterial RNA polymerase and allele-specific residues in the product RNA-binding pocket. J. Mol. Biol. 2006, 356:1163-1179.
    • (2006) J. Mol. Biol. , vol.356 , pp. 1163-1179
    • Ederth, J.1    Mooney, R.A.2    Isaksson, L.A.3    Landick, R.4
  • 14
    • 0019877865 scopus 로고
    • Rho-independent termination: dyad symmetry in DNA causes RNA polymerase to pause during transcription in vitro
    • Farnham P.J., Platt T. Rho-independent termination: dyad symmetry in DNA causes RNA polymerase to pause during transcription in vitro. Nucleic Acids Res. 1981, 9:563-577.
    • (1981) Nucleic Acids Res. , vol.9 , pp. 563-577
    • Farnham, P.J.1    Platt, T.2
  • 15
    • 0015985734 scopus 로고
    • Genetic characterization of a bacterial locus involved in the activity of the N function of phage lambda
    • Friedman D.I., Baron L.S. Genetic characterization of a bacterial locus involved in the activity of the N function of phage lambda. Virology 1974, 58:141-148.
    • (1974) Virology , vol.58 , pp. 141-148
    • Friedman, D.I.1    Baron, L.S.2
  • 17
    • 0019729701 scopus 로고
    • Termination of transcription by nusA gene protein of Escherichia coli
    • Greenblatt J., McLimont M., Hanly S. Termination of transcription by nusA gene protein of Escherichia coli. Nature 1981, 292:215-220.
    • (1981) Nature , vol.292 , pp. 215-220
    • Greenblatt, J.1    McLimont, M.2    Hanly, S.3
  • 18
    • 77955550450 scopus 로고    scopus 로고
    • The NusA N-terminal domain is necessary and sufficient for enhancement of transcriptional pausing via interaction with the RNA exit channel of RNA polymerase
    • Ha K.S., Toulokhonov I., Vassylyev D.G., Landick R. The NusA N-terminal domain is necessary and sufficient for enhancement of transcriptional pausing via interaction with the RNA exit channel of RNA polymerase. J. Mol. Biol. 2010, 401:708-725.
    • (2010) J. Mol. Biol. , vol.401 , pp. 708-725
    • Ha, K.S.1    Toulokhonov, I.2    Vassylyev, D.G.3    Landick, R.4
  • 19
    • 0035984639 scopus 로고    scopus 로고
    • Regulation by transcription attenuation in bacteria: how RNA provides instructions for transcription termination/antitermination decisions
    • Henkin T.M., Yanofsky C. Regulation by transcription attenuation in bacteria: how RNA provides instructions for transcription termination/antitermination decisions. Bioessays 2002, 24:700-707.
    • (2002) Bioessays , vol.24 , pp. 700-707
    • Henkin, T.M.1    Yanofsky, C.2
  • 21
    • 50149109300 scopus 로고    scopus 로고
    • Single-molecule studies of RNA polymerase: motoring along
    • Herbert K.M., Greenleaf W.J., Block S.M. Single-molecule studies of RNA polymerase: motoring along. Annu. Rev. Biochem. 2008, 77:149-176.
    • (2008) Annu. Rev. Biochem. , vol.77 , pp. 149-176
    • Herbert, K.M.1    Greenleaf, W.J.2    Block, S.M.3
  • 22
    • 77953082083 scopus 로고    scopus 로고
    • E. coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase
    • Herbert K.M., Zhou J., Mooney R.A., Porta A.L., Landick R., Block S.M. E. coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase. J. Mol. Biol. 2010, 399:17-30.
    • (2010) J. Mol. Biol. , vol.399 , pp. 17-30
    • Herbert, K.M.1    Zhou, J.2    Mooney, R.A.3    Porta, A.L.4    Landick, R.5    Block, S.M.6
  • 23
    • 0032904686 scopus 로고    scopus 로고
    • Autogenous regulation of transcription termination factor Rho and the requirement for Nus factors in Bacillus subtilis
    • Ingham C.J., Dennis J., Furneaux P.A. Autogenous regulation of transcription termination factor Rho and the requirement for Nus factors in Bacillus subtilis. Mol. Microbiol. 1999, 31:651-663.
    • (1999) Mol. Microbiol. , vol.31 , pp. 651-663
    • Ingham, C.J.1    Dennis, J.2    Furneaux, P.A.3
  • 24
    • 0019412155 scopus 로고
    • Pausing and termination of transcription within the early region of bacteriophage T7 DNA in vitro
    • Kassavetis G.A., Chamberlin M.J. Pausing and termination of transcription within the early region of bacteriophage T7 DNA in vitro. J. Biol. Chem. 1981, 256:2777-2786.
    • (1981) J. Biol. Chem. , vol.256 , pp. 2777-2786
    • Kassavetis, G.A.1    Chamberlin, M.J.2
  • 25
    • 67049100283 scopus 로고    scopus 로고
    • Mechanism of sequence-specific pausing of bacterial RNA polymerase
    • Kireeva M.L., Kashlev M. Mechanism of sequence-specific pausing of bacterial RNA polymerase. Proc. Natl. Acad. Sci. USA 2009, 106:8900-8905.
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 8900-8905
    • Kireeva, M.L.1    Kashlev, M.2
  • 26
    • 0030950638 scopus 로고    scopus 로고
    • RNA polymerase switches between inactivated and activated states By translocating back and forth along the DNA and the RNA
    • Komissarova N., Kashlev M. RNA polymerase switches between inactivated and activated states By translocating back and forth along the DNA and the RNA. J. Biol. Chem. 1997, 272:15329-15338.
    • (1997) J. Biol. Chem. , vol.272 , pp. 15329-15338
    • Komissarova, N.1    Kashlev, M.2
  • 27
    • 0031059249 scopus 로고    scopus 로고
    • Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded
    • Komissarova N., Kashlev M. Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded. Proc. Natl. Acad. Sci. USA 1997, 94:1755-1760.
    • (1997) Proc. Natl. Acad. Sci. USA , vol.94 , pp. 1755-1760
    • Komissarova, N.1    Kashlev, M.2
  • 28
    • 34547097808 scopus 로고    scopus 로고
    • Direct versus limited-step reconstitution reveals key features of an RNA hairpin-stabilized paused transcription complex
    • Kyzer S., Ha K.S., Landick R., Palangat M. Direct versus limited-step reconstitution reveals key features of an RNA hairpin-stabilized paused transcription complex. J. Biol. Chem. 2007, 282:19020-19028.
    • (2007) J. Biol. Chem. , vol.282 , pp. 19020-19028
    • Kyzer, S.1    Ha, K.S.2    Landick, R.3    Palangat, M.4
  • 29
    • 33846914726 scopus 로고    scopus 로고
    • The regulatory roles and mechanism of transcriptional pausing
    • Landick R. The regulatory roles and mechanism of transcriptional pausing. Biochem. Soc. Trans. 2006, 34:1062-1066.
    • (2006) Biochem. Soc. Trans. , vol.34 , pp. 1062-1066
    • Landick, R.1
  • 30
    • 67049154068 scopus 로고    scopus 로고
    • Transcriptional pausing without backtracking
    • Landick R. Transcriptional pausing without backtracking. Proc. Natl. Acad. Sci. USA 2009, 106:8797-8798.
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 8797-8798
    • Landick, R.1
  • 31
    • 0022392670 scopus 로고
    • Translation activates the paused transcription complex and restores transcription of the trp operon leader region
    • Landick R., Carey J., Yanofsky C. Translation activates the paused transcription complex and restores transcription of the trp operon leader region. Proc. Natl. Acad. Sci. USA 1985, 82:4663-4667.
    • (1985) Proc. Natl. Acad. Sci. USA , vol.82 , pp. 4663-4667
    • Landick, R.1    Carey, J.2    Yanofsky, C.3
  • 32
    • 79251591946 scopus 로고    scopus 로고
    • Single-molecule studies of RNA polymerase: one singular sensation, every little step it takes
    • Larson M.H., Landick R., Block S.M. Single-molecule studies of RNA polymerase: one singular sensation, every little step it takes. Mol. Cell 2011, 41:249-262.
    • (2011) Mol. Cell , vol.41 , pp. 249-262
    • Larson, M.H.1    Landick, R.2    Block, S.M.3
  • 33
    • 0032747748 scopus 로고    scopus 로고
    • Functional importance of regions in Escherichia coli elongation factor NusA that interact with RNA polymerase, the bacteriophage lambda N protein and RNA
    • Mah T.F., Li J., Davidson A.R., Greenblatt J. Functional importance of regions in Escherichia coli elongation factor NusA that interact with RNA polymerase, the bacteriophage lambda N protein and RNA. Mol. Microbiol. 1999, 34:523-537.
    • (1999) Mol. Microbiol. , vol.34 , pp. 523-537
    • Mah, T.F.1    Li, J.2    Davidson, A.R.3    Greenblatt, J.4
  • 34
    • 0034667947 scopus 로고    scopus 로고
    • The alpha subunit of E. coli RNA polymerase activates RNA binding by NusA
    • Mah T.F., Kuznedelov K., Mushegian A., Severinov K., Greenblatt J. The alpha subunit of E. coli RNA polymerase activates RNA binding by NusA. Genes Dev. 2000, 14:2664-2675.
    • (2000) Genes Dev. , vol.14 , pp. 2664-2675
    • Mah, T.F.1    Kuznedelov, K.2    Mushegian, A.3    Severinov, K.4    Greenblatt, J.5
  • 35
    • 50149118845 scopus 로고    scopus 로고
    • Thermal probing of E. coli RNA polymerase off-pathway mechanisms
    • Mejia Y.X., Mao H., Forde N.R., Bustamante C. Thermal probing of E. coli RNA polymerase off-pathway mechanisms. J. Mol. Biol. 2008, 382:628-637.
    • (2008) J. Mol. Biol. , vol.382 , pp. 628-637
    • Mejia, Y.X.1    Mao, H.2    Forde, N.R.3    Bustamante, C.4
  • 37
    • 0345047725 scopus 로고    scopus 로고
    • Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking
    • Neuman K.C., Abbondanzieri E.A., Landick R., Gelles J., Block S.M. Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking. Cell 2003, 115:437-447.
    • (2003) Cell , vol.115 , pp. 437-447
    • Neuman, K.C.1    Abbondanzieri, E.A.2    Landick, R.3    Gelles, J.4    Block, S.M.5
  • 38
    • 0035838977 scopus 로고    scopus 로고
    • Roles of RNA:DNA hybrid stability, RNA structure, and active site conformation in pausing by human RNA polymerase II
    • Palangat M., Landick R. Roles of RNA:DNA hybrid stability, RNA structure, and active site conformation in pausing by human RNA polymerase II. J. Mol. Biol. 2001, 311:265-282.
    • (2001) J. Mol. Biol. , vol.311 , pp. 265-282
    • Palangat, M.1    Landick, R.2
  • 40
    • 0000882465 scopus 로고    scopus 로고
    • Control of RNA chain elongation and termination
    • ASM Press, Washington, DC, F. Neidhardt, I.R. Curtiss, J.L. Ingraham, E.C.C. Lin, K.B. Low, B. Magasanik, W.S. Rfznikopp, M. Riley, M. Schaechter, H.E. Umbarger (Eds.)
    • Richardson J.P., Greenblatt J. Control of RNA chain elongation and termination. Escherichia coli and Salmonella: Cellular and Molecular Biology 1996, 822-848. ASM Press, Washington, DC. F. Neidhardt, I.R. Curtiss, J.L. Ingraham, E.C.C. Lin, K.B. Low, B. Magasanik, W.S. Rfznikopp, M. Riley, M. Schaechter, H.E. Umbarger (Eds.).
    • (1996) Escherichia coli and Salmonella: Cellular and Molecular Biology , pp. 822-848
    • Richardson, J.P.1    Greenblatt, J.2
  • 42
    • 0023660679 scopus 로고
    • NusA protein of Escherichia coli is an efficient transcription termination factor for certain terminator sites
    • Schmidt M.C., Chamberlin M.J. nusA protein of Escherichia coli is an efficient transcription termination factor for certain terminator sites. J. Mol. Biol. 1987, 195:809-818.
    • (1987) J. Mol. Biol. , vol.195 , pp. 809-818
    • Schmidt, M.C.1    Chamberlin, M.J.2
  • 43
    • 0346258014 scopus 로고    scopus 로고
    • Backtracking by single RNA polymerase molecules observed at near-base-pair resolution
    • Shaevitz J.W., Abbondanzieri E.A., Landick R., Block S.M. Backtracking by single RNA polymerase molecules observed at near-base-pair resolution. Nature 2003, 426:684-687.
    • (2003) Nature , vol.426 , pp. 684-687
    • Shaevitz, J.W.1    Abbondanzieri, E.A.2    Landick, R.3    Block, S.M.4
  • 44
    • 0023721890 scopus 로고
    • Nus A protein affects transcriptional pausing and termination in vitro by binding to different sites on the transcription complex
    • Sigmund C.D., Morgan E.A. Nus A protein affects transcriptional pausing and termination in vitro by binding to different sites on the transcription complex. Biochemistry 1988, 27:5622-5627.
    • (1988) Biochemistry , vol.27 , pp. 5622-5627
    • Sigmund, C.D.1    Morgan, E.A.2
  • 45
    • 0025005373 scopus 로고
    • A quantitative assessment for transcriptional pausing of DNA-dependent RNA polymerases in vitro
    • Theissen G., Pardon B., Wagner R. A quantitative assessment for transcriptional pausing of DNA-dependent RNA polymerases in vitro. Anal. Biochem. 1990, 189:254-261.
    • (1990) Anal. Biochem. , vol.189 , pp. 254-261
    • Theissen, G.1    Pardon, B.2    Wagner, R.3
  • 46
    • 0344413496 scopus 로고    scopus 로고
    • The flap domain is required for pause RNA hairpin inhibition of catalysis by RNA polymerase and can modulate intrinsic termination
    • Toulokhonov I., Landick R. The flap domain is required for pause RNA hairpin inhibition of catalysis by RNA polymerase and can modulate intrinsic termination. Mol. Cell 2003, 12:1125-1136.
    • (2003) Mol. Cell , vol.12 , pp. 1125-1136
    • Toulokhonov, I.1    Landick, R.2
  • 47
    • 0035957687 scopus 로고    scopus 로고
    • Allosteric control of RNA polymerase by a site that contacts nascent RNA hairpins
    • Toulokhonov I., Artsimovitch I., Landick R. Allosteric control of RNA polymerase by a site that contacts nascent RNA hairpins. Science 2001, 292:730-733.
    • (2001) Science , vol.292 , pp. 730-733
    • Toulokhonov, I.1    Artsimovitch, I.2    Landick, R.3
  • 48
    • 34547204502 scopus 로고    scopus 로고
    • A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing
    • Toulokhonov I., Zhang J., Palangat M., Landick R. A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing. Mol. Cell 2007, 27:406-419.
    • (2007) Mol. Cell , vol.27 , pp. 406-419
    • Toulokhonov, I.1    Zhang, J.2    Palangat, M.3    Landick, R.4
  • 49
    • 0031008221 scopus 로고    scopus 로고
    • Basic mechanisms of transcript elongation and its regulation
    • Uptain S.M., Kane C.M., Chamberlin M.J. Basic mechanisms of transcript elongation and its regulation. Annu. Rev. Biochem. 1997, 66:117-172.
    • (1997) Annu. Rev. Biochem. , vol.66 , pp. 117-172
    • Uptain, S.M.1    Kane, C.M.2    Chamberlin, M.J.3
  • 50
    • 0030979021 scopus 로고    scopus 로고
    • NusA Is Required for Ribosomal Antitermination and for Modulation of the Transcription Elongation Rate of both Antiterminated RNA and mRNA
    • Vogel U., Jensen K.F. NusA Is Required for Ribosomal Antitermination and for Modulation of the Transcription Elongation Rate of both Antiterminated RNA and mRNA. J. Biol. Chem. 1997, 272:12265-12271.
    • (1997) J. Biol. Chem. , vol.272 , pp. 12265-12271
    • Vogel, U.1    Jensen, K.F.2
  • 51
    • 0032584643 scopus 로고    scopus 로고
    • An integrated model of the transcription complex in elongation, termination, and editing
    • von Hippel P.H. An integrated model of the transcription complex in elongation, termination, and editing. Science 1998, 281:660-665.
    • (1998) Science , vol.281 , pp. 660-665
    • von Hippel, P.H.1
  • 53
    • 0034973423 scopus 로고    scopus 로고
    • An extended RNA binding surface through arrayed S1 and KH domains in transcription factor NusA
    • Worbs M., Bourenkov G.P., Bartunik H.D., Huber R., Wahl M.C. An extended RNA binding surface through arrayed S1 and KH domains in transcription factor NusA. Mol. Cell 2001, 7:1177-1189.
    • (2001) Mol. Cell , vol.7 , pp. 1177-1189
    • Worbs, M.1    Bourenkov, G.P.2    Bartunik, H.D.3    Huber, R.4    Wahl, M.C.5
  • 55
    • 0037832404 scopus 로고    scopus 로고
    • Myosin V walks hand-over-hand: single fluorophore imaging with 1.5-nm localization
    • Yildiz A., Forkey J.N., McKinney S.A., Ha T., Goldman Y.E., Selvin P.R. Myosin V walks hand-over-hand: single fluorophore imaging with 1.5-nm localization. Science 2003, 300:2061-2065.
    • (2003) Science , vol.300 , pp. 2061-2065
    • Yildiz, A.1    Forkey, J.N.2    McKinney, S.A.3    Ha, T.4    Goldman, Y.E.5    Selvin, P.R.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.