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Volumn 58, Issue 3, 2015, Pages 534-540

Crystal structures of the e.coli transcription initiation complexes with a complete bubble

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE; RNA OLIGONUCLEOTIDE; RNA POLYMERASE; UNCLASSIFIED DRUG; DNA DIRECTED RNA POLYMERASE; ESCHERICHIA COLI PROTEIN; FUNGAL DNA; PROTEIN BINDING;

EID: 84928928161     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2015.03.010     Document Type: Article
Times cited : (183)

References (43)
  • 1
    • 84889685182 scopus 로고    scopus 로고
    • Phage T7 Gp2 inhibition of Escherichia coli RNA polymerase involves misappropriation of σ70 domain 1.1
    • Bae B., Davis E., Brown D., Campbell E.A., Wigneshweraraj S., Darst S.A. Phage T7 Gp2 inhibition of Escherichia coli RNA polymerase involves misappropriation of σ70 domain 1.1. Proc. Natl. Acad. Sci. USA 2013, 110:19772-19777.
    • (2013) Proc. Natl. Acad. Sci. USA , vol.110 , pp. 19772-19777
    • Bae, B.1    Davis, E.2    Brown, D.3    Campbell, E.A.4    Wigneshweraraj, S.5    Darst, S.A.6
  • 5
    • 84895899939 scopus 로고    scopus 로고
    • Structural basis for -10 promoter element melting by environmentally induced sigma factors
    • Campagne S., Marsh M.E., Capitani G., Vorholt J.A., Allain F.H. Structural basis for -10 promoter element melting by environmentally induced sigma factors. Nat. Struct. Mol. Biol. 2014, 21:269-276.
    • (2014) Nat. Struct. Mol. Biol. , vol.21 , pp. 269-276
    • Campagne, S.1    Marsh, M.E.2    Capitani, G.3    Vorholt, J.A.4    Allain, F.H.5
  • 7
    • 0037458717 scopus 로고    scopus 로고
    • Changes in conserved region 3 of Escherichia coli sigma 70 reduce abortive transcription and enhance promoter escape
    • Cashel M., Hsu L.M., Hernandez V.J. Changes in conserved region 3 of Escherichia coli sigma 70 reduce abortive transcription and enhance promoter escape. J.Biol. Chem. 2003, 278:5539-5547.
    • (2003) J.Biol. Chem. , vol.278 , pp. 5539-5547
    • Cashel, M.1    Hsu, L.M.2    Hernandez, V.J.3
  • 10
    • 83255167029 scopus 로고    scopus 로고
    • Structural basis for promoter-10 element recognition by the bacterial RNA polymerase σ subunit
    • Feklistov A., Darst S.A. Structural basis for promoter-10 element recognition by the bacterial RNA polymerase σ subunit. Cell 2011, 147:1257-1269.
    • (2011) Cell , vol.147 , pp. 1257-1269
    • Feklistov, A.1    Darst, S.A.2
  • 11
    • 84907504864 scopus 로고    scopus 로고
    • Bacterial sigmafactors: a historical, structural, and genomic perspective
    • Feklístov A., Sharon B.D., Darst S.A., Gross C.A. Bacterial sigmafactors: a historical, structural, and genomic perspective. Annu. Rev. Microbiol. 2014, 68:357-376.
    • (2014) Annu. Rev. Microbiol. , vol.68 , pp. 357-376
    • Feklístov, A.1    Sharon, B.D.2    Darst, S.A.3    Gross, C.A.4
  • 12
    • 0025804111 scopus 로고
    • Requirement for the beta,gamma-pyrophosphate bond of ATP in a stage between transcription initiation and elongation by Escherichia coli RNA polymerase
    • Fujioka M., Hirata T., Shimamoto N. Requirement for the beta,gamma-pyrophosphate bond of ATP in a stage between transcription initiation and elongation by Escherichia coli RNA polymerase. Biochemistry 1991, 30:1801-1807.
    • (1991) Biochemistry , vol.30 , pp. 1801-1807
    • Fujioka, M.1    Hirata, T.2    Shimamoto, N.3
  • 13
    • 66149123741 scopus 로고    scopus 로고
    • Direct detection of abortive RNA transcripts invivo
    • Goldman S.R., Ebright R.H., Nickels B.E. Direct detection of abortive RNA transcripts invivo. Science 2009, 324:927-928.
    • (2009) Science , vol.324 , pp. 927-928
    • Goldman, S.R.1    Ebright, R.H.2    Nickels, B.E.3
  • 14
    • 0032578471 scopus 로고    scopus 로고
    • Promoter opening via a DNA fork junction binding activity
    • Guo Y., Gralla J.D. Promoter opening via a DNA fork junction binding activity. Proc. Natl. Acad. Sci. USA 1998, 95:11655-11660.
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 11655-11660
    • Guo, Y.1    Gralla, J.D.2
  • 15
    • 0018308755 scopus 로고
    • A noncycling activity assay for the omega subunit of Escherichia coli RNA polymerase
    • Hansen U.M., McClure W.R. A noncycling activity assay for the omega subunit of Escherichia coli RNA polymerase. J.Biol. Chem. 1979, 254:5713-5717.
    • (1979) J.Biol. Chem. , vol.254 , pp. 5713-5717
    • Hansen, U.M.1    McClure, W.R.2
  • 16
    • 0019216997 scopus 로고
    • Role of the sigma subunit of Escherichia coli RNA polymerase in initiation. II. Release of sigma from ternary complexes
    • Hansen U.M., McClure W.R. Role of the sigma subunit of Escherichia coli RNA polymerase in initiation. II. Release of sigma from ternary complexes. J.Biol. Chem. 1980, 255:9564-9570.
    • (1980) J.Biol. Chem. , vol.255 , pp. 9564-9570
    • Hansen, U.M.1    McClure, W.R.2
  • 17
    • 0023650609 scopus 로고
    • Analysis of E.coli promoter sequences
    • Harley C.B., Reynolds R.P. Analysis of E.coli promoter sequences. Nucleic Acids Res. 1987, 15:2343-2361.
    • (1987) Nucleic Acids Res. , vol.15 , pp. 2343-2361
    • Harley, C.B.1    Reynolds, R.P.2
  • 18
    • 58849087205 scopus 로고    scopus 로고
    • Transcription initiation by mix and match elements: flexibility for polymerase binding to bacterial promoters
    • Hook-Barnard I.G., Hinton D.M. Transcription initiation by mix and match elements: flexibility for polymerase binding to bacterial promoters. Gene Regul. Syst. Bio. 2007, 1:275-293.
    • (2007) Gene Regul. Syst. Bio. , vol.1 , pp. 275-293
    • Hook-Barnard, I.G.1    Hinton, D.M.2
  • 19
    • 33751212468 scopus 로고    scopus 로고
    • Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism
    • Kapanidis A.N., Margeat E., Ho S.O., Kortkhonjia E., Weiss S., Ebright R.H. Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism. Science 2006, 314:1144-1147.
    • (2006) Science , vol.314 , pp. 1144-1147
    • Kapanidis, A.N.1    Margeat, E.2    Ho, S.O.3    Kortkhonjia, E.4    Weiss, S.5    Ebright, R.H.6
  • 20
    • 0023644795 scopus 로고
    • Constitutive function of a positively regulated promoter reveals new sequences essential for activity
    • Keilty S., Rosenberg M. Constitutive function of a positively regulated promoter reveals new sequences essential for activity. J.Biol. Chem. 1987, 262:6389-6395.
    • (1987) J.Biol. Chem. , vol.262 , pp. 6389-6395
    • Keilty, S.1    Rosenberg, M.2
  • 21
    • 33745832269 scopus 로고    scopus 로고
    • Region 3.2 of the sigma subunit contributes to the binding of the 3'-initiating nucleotide in the RNA polymerase active center and facilitates promoter clearance during initiation
    • Kulbachinskiy A., Mustaev A. Region 3.2 of the sigma subunit contributes to the binding of the 3'-initiating nucleotide in the RNA polymerase active center and facilitates promoter clearance during initiation. J.Biol. Chem. 2006, 281:18273-18276.
    • (2006) J.Biol. Chem. , vol.281 , pp. 18273-18276
    • Kulbachinskiy, A.1    Mustaev, A.2
  • 23
    • 84923281143 scopus 로고    scopus 로고
    • Structural basis for transcription reactivation by RapA
    • Liu B., Zuo Y., Steitz T.A. Structural basis for transcription reactivation by RapA. Proc. Natl. Acad. Sci. USA 2015, 112:2006-2010.
    • (2015) Proc. Natl. Acad. Sci. USA , vol.112 , pp. 2006-2010
    • Liu, B.1    Zuo, Y.2    Steitz, T.A.3
  • 26
    • 0037123602 scopus 로고    scopus 로고
    • Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complex
    • Murakami K.S., Masuda S., Campbell E.A., Muzzin O., Darst S.A. Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complex. Science 2002, 296:1285-1290.
    • (2002) Science , vol.296 , pp. 1285-1290
    • Murakami, K.S.1    Masuda, S.2    Campbell, E.A.3    Muzzin, O.4    Darst, S.A.5
  • 27
    • 0037123659 scopus 로고    scopus 로고
    • Structural basis of transcription initiation: RNA polymerase holoenzyme at 4 A resolution
    • Murakami K.S., Masuda S., Darst S.A. Structural basis of transcription initiation: RNA polymerase holoenzyme at 4 A resolution. Science 2002, 296:1280-1284.
    • (2002) Science , vol.296 , pp. 1280-1284
    • Murakami, K.S.1    Masuda, S.2    Darst, S.A.3
  • 29
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 1997, 276:307-326.
    • (1997) Methods Enzymol. , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 30
    • 84898995636 scopus 로고    scopus 로고
    • Distinct functions of the RNA polymerase σ subunit region 3.2 in RNA priming and promoter escape
    • Pupov D., Kuzin I., Bass I., Kulbachinskiy A. Distinct functions of the RNA polymerase σ subunit region 3.2 in RNA priming and promoter escape. Nucleic Acids Res. 2014, 42:4494-4504.
    • (2014) Nucleic Acids Res. , vol.42 , pp. 4494-4504
    • Pupov, D.1    Kuzin, I.2    Bass, I.3    Kulbachinskiy, A.4
  • 31
    • 33751218319 scopus 로고    scopus 로고
    • Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching
    • Revyakin A., Liu C., Ebright R.H., Strick T.R. Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching. Science 2006, 314:1139-1143.
    • (2006) Science , vol.314 , pp. 1139-1143
    • Revyakin, A.1    Liu, C.2    Ebright, R.H.3    Strick, T.R.4
  • 32
    • 79959368804 scopus 로고    scopus 로고
    • Mechanism of bacterial transcription initiation: RNA polymerase - promoter binding, isomerization to initiation-competent open complexes, and initiation of RNA synthesis
    • Saecker R.M., Record M.T., Dehaseth P.L. Mechanism of bacterial transcription initiation: RNA polymerase - promoter binding, isomerization to initiation-competent open complexes, and initiation of RNA synthesis. J.Mol. Biol. 2011, 412:754-771.
    • (2011) J.Mol. Biol. , vol.412 , pp. 754-771
    • Saecker, R.M.1    Record, M.T.2    Dehaseth, P.L.3
  • 33
    • 84872614213 scopus 로고    scopus 로고
    • Structure and function of the initially transcribing RNA polymerase II-TFIIB complex
    • Sainsbury S., Niesser J., Cramer P. Structure and function of the initially transcribing RNA polymerase II-TFIIB complex. Nature 2013, 493:437-440.
    • (2013) Nature , vol.493 , pp. 437-440
    • Sainsbury, S.1    Niesser, J.2    Cramer, P.3
  • 34
    • 84887058499 scopus 로고    scopus 로고
    • Insights into the mechanism of initialtranscription in Escherichia coli RNA polymerase
    • Samanta S., Martin C.T. Insights into the mechanism of initialtranscription in Escherichia coli RNA polymerase. J.Biol. Chem. 2013, 288:31993-32003.
    • (2013) J.Biol. Chem. , vol.288 , pp. 31993-32003
    • Samanta, S.1    Martin, C.T.2
  • 35
    • 84897383324 scopus 로고    scopus 로고
    • The whole set of constitutive promoters recognized by RNA polymerase RpoD holoenzyme of Escherichia coli
    • Shimada T., Yamazaki Y., Tanaka K., Ishihama A. The whole set of constitutive promoters recognized by RNA polymerase RpoD holoenzyme of Escherichia coli. PLoS ONE 2014, 9:e90447.
    • (2014) PLoS ONE , vol.9 , pp. e90447
    • Shimada, T.1    Yamazaki, Y.2    Tanaka, K.3    Ishihama, A.4
  • 36
    • 0023102647 scopus 로고
    • A stressed intermediate in the formation of stably initiated RNA chains at the Escherichia coli lac UV5 promoter
    • Straney D.C., Crothers D.M. A stressed intermediate in the formation of stably initiated RNA chains at the Escherichia coli lac UV5 promoter. J.Mol. Biol. 1987, 193:267-278.
    • (1987) J.Mol. Biol. , vol.193 , pp. 267-278
    • Straney, D.C.1    Crothers, D.M.2
  • 39
    • 1842585840 scopus 로고    scopus 로고
    • The role of RNA polymerase sigma subunit in promoter-independent initiation of transcription
    • Zenkin N., Severinov K. The role of RNA polymerase sigma subunit in promoter-independent initiation of transcription. Proc. Natl. Acad. Sci. USA 2004, 101:4396-4400.
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 4396-4400
    • Zenkin, N.1    Severinov, K.2
  • 42
    • 0346750976 scopus 로고    scopus 로고
    • Escherichia coli proteins eluted from mono Q chromatography, a final step during RNA polymerase purification procedure
    • Zhi H., Yang W., Jin D.J. Escherichia coli proteins eluted from mono Q chromatography, a final step during RNA polymerase purification procedure. Methods Enzymol. 2003, 370:291-300.
    • (2003) Methods Enzymol. , vol.370 , pp. 291-300
    • Zhi, H.1    Yang, W.2    Jin, D.J.3
  • 43
    • 84887143299 scopus 로고    scopus 로고
    • The mechanism of E.coli RNA polymerase regulation by ppGpp is suggested by the structure of their complex
    • Zuo Y., Wang Y., Steitz T.A. The mechanism of E.coli RNA polymerase regulation by ppGpp is suggested by the structure of their complex. Mol. Cell 2013, 50:430-436.
    • (2013) Mol. Cell , vol.50 , pp. 430-436
    • Zuo, Y.1    Wang, Y.2    Steitz, T.A.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.