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Volumn 5, Issue 1, 2008, Pages 30-40

Isolation of small RNA-binding proteins from E. coli: Evidence for frequent interaction of RNAs with RNA polymerase

Author keywords

6S RNA; Hfq; MicF RNA; RdRP; RNA polymerase; Streptotag

Indexed keywords

CELL EXTRACT; HOST FACTOR HFQ; RIBOSOMAL PROTEIN S1; RIBOSOME PROTEIN; RNA; RNA BINDING PROTEIN; RNA POLYMERASE; RNA POLYMERASE BETA SUBUNIT; SMALL RNA BINDING PROTEIN; UNCLASSIFIED DRUG; BACTERIAL RNA; DNA DIRECTED RNA POLYMERASE; ESCHERICHIA COLI PROTEIN;

EID: 85046912592     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.5.1.5694     Document Type: Article
Times cited : (45)

References (42)
  • 1
    • 0037123632 scopus 로고    scopus 로고
    • An expanding universe of noncoding RNAs
    • Storz G. An expanding universe of noncoding RNAs. Science 2002; 296:1260-3.
    • (2002) Science , vol.296 , pp. 1260-1263
    • Storz, G.1
  • 3
    • 4344682527 scopus 로고    scopus 로고
    • The Small RNA Regulators of Escherichia coli: Roles and Mechanisms
    • Gottesman S. The Small RNA Regulators of Escherichia coli: Roles and Mechanisms. Annu Rev Microbiol 2004; 58:303-28.
    • (2004) Annu Rev Microbiol , vol.58 , pp. 303-328
    • Gottesman, S.1
  • 4
    • 0034625237 scopus 로고    scopus 로고
    • 6S RNA regulates E. coli RNA polymerase activity
    • Wassarman KM, Storz G. 6S RNA regulates E. coli RNA polymerase activity. Cell 2000; 101:613-23.
    • (2000) Cell , vol.101 , pp. 613-623
    • Wassarman, K.M.1    Storz, G.2
  • 5
    • 33845450357 scopus 로고    scopus 로고
    • Synthesis-Mediated Release of Small RNA Inhibitor of RNA polymerase
    • Wassarman KM, Saecker RM. Synthesis-Mediated Release of Small RNA Inhibitor of RNA polymerase. Science 2006; 314:1601-3.
    • (2006) Science , vol.314 , pp. 1601-1603
    • Wassarman, K.M.1    Saecker, R.M.2
  • 6
    • 34247860970 scopus 로고    scopus 로고
    • Studies on the function of the riboregulator 6S RNA from E. coli: RNA polymerase binding, inhibition of in vitro transcription and synthesis of RNA-directed de novo transcripts
    • Gildehaus N, Neußer T, Wurm R, Wagner R. Studies on the function of the riboregulator 6S RNA from E. coli: RNA polymerase binding, inhibition of in vitro transcription and synthesis of RNA-directed de novo transcripts. Nucl Acids Res 2007; 35:1885-96.
    • (2007) Nucl Acids Res , vol.35 , pp. 1885-1896
    • Gildehaus, N.1    Neußer, T.2    Wurm, R.3    Wagner, R.4
  • 8
    • 1542320707 scopus 로고    scopus 로고
    • Geissmann TA, Touati D. Hfq, a new chaperoning role: binding to messenger RNA determines access for small RNA regulator. EMBO J 2004; 23:396-405.
    • Geissmann TA, Touati D. Hfq, a new chaperoning role: binding to messenger RNA determines access for small RNA regulator. EMBO J 2004; 23:396-405.
  • 9
    • 0032514643 scopus 로고    scopus 로고
    • Lease RA, Cusick ME, Belfort M. Riboregulation in Escherichia coli: DsrA RNA acts by RNA:RNA interactions at multiple loci. Proc Natl Acad Sci USA 1998; 95:12456-61.
    • Lease RA, Cusick ME, Belfort M. Riboregulation in Escherichia coli: DsrA RNA acts by RNA:RNA interactions at multiple loci. Proc Natl Acad Sci USA 1998; 95:12456-61.
  • 11
    • 0036163624 scopus 로고    scopus 로고
    • The Sm-like Hfq Protein Increases OxyS RNA Interaction with Target mRNAs
    • Zhang A, Wassarman KM, Ortega J, Steven AC, Storz G. The Sm-like Hfq Protein Increases OxyS RNA Interaction with Target mRNAs. Mol Cell 2002; 9:11-22.
    • (2002) Mol Cell , vol.9 , pp. 11-22
    • Zhang, A.1    Wassarman, K.M.2    Ortega, J.3    Steven, A.C.4    Storz, G.5
  • 13
    • 36249019206 scopus 로고    scopus 로고
    • Dissecting RNA Chaperone Activity
    • Rajkowitsch L, Schroeder R. Dissecting RNA Chaperone Activity. RNA 2007; 3:2053-60.
    • (2007) RNA , vol.3 , pp. 2053-2060
    • Rajkowitsch, L.1    Schroeder, R.2
  • 14
    • 0032758073 scopus 로고    scopus 로고
    • StreptoTag: A novel method for the isolation of RNA-binding proteins
    • Bachler M, Schroeder R, von Ahsen U. StreptoTag: a novel method for the isolation of RNA-binding proteins. RNA 1999; 5:1509-16.
    • (1999) RNA , vol.5 , pp. 1509-1516
    • Bachler, M.1    Schroeder, R.2    von Ahsen, U.3
  • 15
    • 34548749823 scopus 로고    scopus 로고
    • Isolation of specific RNA-binding proteins using the streptomycin-binding RNA aptamer
    • Windbichler N, Schroeder R. Isolation of specific RNA-binding proteins using the streptomycin-binding RNA aptamer. Nature Protocols 2006; 1:638-41.
    • (2006) Nature Protocols , vol.1 , pp. 638-641
    • Windbichler, N.1    Schroeder, R.2
  • 16
    • 0036342369 scopus 로고    scopus 로고
    • The DnaK chaperone system facilitates 30S ribosomal subunit assembly
    • Maki JA, Schnobrich DJ, Culver GM. The DnaK chaperone system facilitates 30S ribosomal subunit assembly. Mol Cell 2002; 10:129-38.
    • (2002) Mol Cell , vol.10 , pp. 129-138
    • Maki, J.A.1    Schnobrich, D.J.2    Culver, G.M.3
  • 17
    • 34047187080 scopus 로고    scopus 로고
    • Genomic systematic evolution of ligands by exponential enrichment (SELEX) for the identification of protein-binding RNAs independent of their expression levels
    • Lorenz C, Von Pelchrzim F, Schroeder R. Genomic systematic evolution of ligands by exponential enrichment (SELEX) for the identification of protein-binding RNAs independent of their expression levels. Nature Protocols 2006; 1:2204-12.
    • (2006) Nature Protocols , vol.1 , pp. 2204-2212
    • Lorenz, C.1    Von Pelchrzim, F.2    Schroeder, R.3
  • 19
    • 0031965013 scopus 로고    scopus 로고
    • In vitro selection and characterization of streptomycin-binding RNAs: Recognition discrimination between antibiotics
    • Wallace ST, Schroeder R. In vitro selection and characterization of streptomycin-binding RNAs: recognition discrimination between antibiotics. RNA 1998; 4:112-23.
    • (1998) RNA , vol.4 , pp. 112-123
    • Wallace, S.T.1    Schroeder, R.2
  • 20
    • 0031697252 scopus 로고    scopus 로고
    • Global regulation by the small RNA binding protein CsrA and the non-coding RNA molecule CsrB
    • Romeo T. Global regulation by the small RNA binding protein CsrA and the non-coding RNA molecule CsrB. Mol Microbiol 1998; 29:1321-30.
    • (1998) Mol Microbiol , vol.29 , pp. 1321-1330
    • Romeo, T.1
  • 21
    • 0027171032 scopus 로고
    • Identification and molecular characterization of CsrA, a pleiotropic gene from Escherichia coli that affects glycogen bioynthesis, gluconeogenesis, cell size and surface properties
    • Romeo T, Gong M, Liu M, Brun Zinkernagel A. Identification and molecular characterization of CsrA, a pleiotropic gene from Escherichia coli that affects glycogen bioynthesis, gluconeogenesis, cell size and surface properties. J Bacteriol 1993; 175:4744-55.
    • (1993) J Bacteriol , vol.175 , pp. 4744-4755
    • Romeo, T.1    Gong, M.2    Liu, M.3    Brun Zinkernagel, A.4
  • 22
    • 0033386645 scopus 로고    scopus 로고
    • Novel intergenic repeats of Escherichia coli K- 2
    • Rudd KE. Novel intergenic repeats of Escherichia coli K- 2. Res Microbiol 1999; 150:653-64.
    • (1999) Res Microbiol , vol.150 , pp. 653-664
    • Rudd, K.E.1
  • 23
    • 33744963617 scopus 로고    scopus 로고
    • Enhancement of the streptotag method for the isolation of endogenously expressed proteins with complex RNA binding targets
    • Dangerfield JA, Windbichler N, Salmons B, Gunzburg WH, Schroeder R. Enhancement of the streptotag method for the isolation of endogenously expressed proteins with complex RNA binding targets. Electrophoresis 2006; 27:1874-7.
    • (2006) Electrophoresis , vol.27 , pp. 1874-1877
    • Dangerfield, J.A.1    Windbichler, N.2    Salmons, B.3    Gunzburg, W.H.4    Schroeder, R.5
  • 24
    • 0018370008 scopus 로고
    • RNA replication: Function and structure of Qbeta-replicase
    • Blumenthal T, Carmichael G. RNA replication: function and structure of Qbeta-replicase. Annu Rev Biochem 1979; 48:525-48.
    • (1979) Annu Rev Biochem , vol.48 , pp. 525-548
    • Blumenthal, T.1    Carmichael, G.2
  • 26
    • 0035395606 scopus 로고    scopus 로고
    • Identification of novel small RNAs using comparative genomics and microarrays
    • Wassarman KM, Repoila F, Rosenow C, Storz G, Gottesman S. Identification of novel small RNAs using comparative genomics and microarrays. Genes Dev 2001; 15:1637-51.
    • (2001) Genes Dev , vol.15 , pp. 1637-1651
    • Wassarman, K.M.1    Repoila, F.2    Rosenow, C.3    Storz, G.4    Gottesman, S.5
  • 27
    • 0037709369 scopus 로고    scopus 로고
    • Sukhodolets MV, Garges S. Interaction of Escherichia coli RNA polymerase with the ribosomal protein S1 and the Sm-like ATPase Hfq. Biochemistry 2003; 42:8022-34.
    • Sukhodolets MV, Garges S. Interaction of Escherichia coli RNA polymerase with the ribosomal protein S1 and the Sm-like ATPase Hfq. Biochemistry 2003; 42:8022-34.
  • 28
    • 33746525428 scopus 로고    scopus 로고
    • Ribosomal protein S1 promotes transcriptional cycling
    • Sukhodolets MV, Garges S, Adhya S. Ribosomal protein S1 promotes transcriptional cycling. RNA 2006; 12:1-9.
    • (2006) RNA , vol.12 , pp. 1-9
    • Sukhodolets, M.V.1    Garges, S.2    Adhya, S.3
  • 29
    • 34047153339 scopus 로고    scopus 로고
    • RNA chaperone activity and RNA-binding properties of the E. coli protein StpA
    • Mayer O, Rajkowitsch L, Lorenz C, Konrat R, Schroeder R. RNA chaperone activity and RNA-binding properties of the E. coli protein StpA. Nucleic Acids Res 2007; 35:1257-69.
    • (2007) Nucleic Acids Res , vol.35 , pp. 1257-1269
    • Mayer, O.1    Rajkowitsch, L.2    Lorenz, C.3    Konrat, R.4    Schroeder, R.5
  • 30
    • 36249026527 scopus 로고    scopus 로고
    • Molecular basis of RNA-dependent RNA polymerase II activity
    • Lehmann E, Brueckner F, Cramer P. Molecular basis of RNA-dependent RNA polymerase II activity. Nature 2007; 450:445-9.
    • (2007) Nature , vol.450 , pp. 445-449
    • Lehmann, E.1    Brueckner, F.2    Cramer, P.3
  • 33
    • 17844379221 scopus 로고    scopus 로고
    • 6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter
    • Barrick JE, Sudarsan N, Weinberg Z, Ruzzo WL, Breaker RR. 6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter. RNA 2005; 11:774-84.
    • (2005) RNA , vol.11 , pp. 774-784
    • Barrick, J.E.1    Sudarsan, N.2    Weinberg, Z.3    Ruzzo, W.L.4    Breaker, R.R.5
  • 34
    • 18344371528 scopus 로고    scopus 로고
    • A highly conserved 6S RNA structure is required for regulation of transcription
    • Trotochaud AE, Wassarman KM. A highly conserved 6S RNA structure is required for regulation of transcription. Nat Struct Mol Biol 2005; 12:313-9.
    • (2005) Nat Struct Mol Biol , vol.12 , pp. 313-319
    • Trotochaud, A.E.1    Wassarman, K.M.2
  • 35
    • 30044449636 scopus 로고    scopus 로고
    • Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs
    • Kettenberger H, Eisenfuhr A, Brueckner F, Theis M, Famulok M, Cramer P. Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs. Nat Struct Mol Biol 2006; 13:44-8.
    • (2006) Nat Struct Mol Biol , vol.13 , pp. 44-48
    • Kettenberger, H.1    Eisenfuhr, A.2    Brueckner, F.3    Theis, M.4    Famulok, M.5    Cramer, P.6
  • 36
    • 0035916889 scopus 로고    scopus 로고
    • RNA species that replicate with DNA-dependent RNA polymerase from Escherichia coli
    • Wettich A, Biebricher CK. RNA species that replicate with DNA-dependent RNA polymerase from Escherichia coli. Biochemistry 2001; 40:3308-15.
    • (2001) Biochemistry , vol.40 , pp. 3308-3315
    • Wettich, A.1    Biebricher, C.K.2
  • 37
    • 0025010211 scopus 로고
    • Structure of RNAs replicated by DNA-dependent T7 RNA polymerase
    • Konarska MM, Sharp PA. Structure of RNAs replicated by DNA-dependent T7 RNA polymerase. Cell 1990; 63:609-18.
    • (1990) Cell , vol.63 , pp. 609-618
    • Konarska, M.M.1    Sharp, P.A.2
  • 38
    • 0020475229 scopus 로고
    • Structural analysis of self-replicating RNA synthesized by Qbeta replicase
    • Biebricher CK, Diekmann S, Luce R. Structural analysis of self-replicating RNA synthesized by Qbeta replicase. J Mol Biol 1982; 154:629-48.
    • (1982) J Mol Biol , vol.154 , pp. 629-648
    • Biebricher, C.K.1    Diekmann, S.2    Luce, R.3
  • 39
    • 0027050568 scopus 로고
    • In vitro recombination and terminal elongation of RNA by Qß replicase
    • Biebricher CK, Luce R. In vitro recombination and terminal elongation of RNA by Qß replicase. EMBO J 1992; :5129-35.
    • (1992) EMBO J , pp. 5129-5135
    • Biebricher, C.K.1    Luce, R.2
  • 40
    • 0030035134 scopus 로고    scopus 로고
    • Template-free generation of RNA species that replicate with bacteriophage T7 RNA polymerase
    • Biebricher CK, Luce R. Template-free generation of RNA species that replicate with bacteriophage T7 RNA polymerase. EMBO J 1996; 15:3458-65.
    • (1996) EMBO J , vol.15 , pp. 3458-3465
    • Biebricher, C.K.1    Luce, R.2
  • 41
    • 33748303049 scopus 로고    scopus 로고
    • Non-coding-RNA regulators of RNA polymerase II transcription
    • Goodrich J, Kugel J. Non-coding-RNA regulators of RNA polymerase II transcription. Nat Rev Mol Cell Biol 2006; 7:612-6.
    • (2006) Nat Rev Mol Cell Biol , vol.7 , pp. 612-616
    • Goodrich, J.1    Kugel, J.2


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