메뉴 건너뛰기




Volumn 33, Issue 1, 2005, Pages 182-189

Site-specific labeling of the ribosome for single-molecule spectroscopy

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE; RIBOSOME RNA; SILICON DIOXIDE; FLUORESCENT DYE;

EID: 13744257300     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gki151     Document Type: Article
Times cited : (100)

References (39)
  • 3
    • 0037184536 scopus 로고    scopus 로고
    • Selection of tRNA by the ribosome requires a transition from an open to a closed form
    • Ogle,J.M., Murphy,F.V.,IV, Tarry,M.J. and Ramakrishnan,V. (2002) Selection of tRNA by the ribosome requires a transition from an open to a closed form. Cell, 111, 721-732.
    • (2002) Cell , vol.111 , pp. 721-732
    • Ogle, J.M.1    Murphy IV, F.V.2    Tarry, M.J.3    Ramakrishnan, V.4
  • 4
    • 0032982866 scopus 로고    scopus 로고
    • EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome
    • Agrawal,R.K., Heagle,A.B., Penczek,P., Grassucci,R.A. and Frank,J. (1999) EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome. Nature Struct. Biol., 6, 643-647.
    • (1999) Nature Struct. Biol. , vol.6 , pp. 643-647
    • Agrawal, R.K.1    Heagle, A.B.2    Penczek, P.3    Grassucci, R.A.4    Frank, J.5
  • 5
    • 0034603196 scopus 로고    scopus 로고
    • Large-scale movement of elongation factor G and extensive conformational change of the ribosome during translocation
    • Stark,H., Rodnina,M.V., Wieden,H.J., van Heel,M. and Wintermeyer,W. (2000) Large-scale movement of elongation factor G and extensive conformational change of the ribosome during translocation. Cell, 100, 301-309.
    • (2000) Cell , vol.100 , pp. 301-309
    • Stark, H.1    Rodnina, M.V.2    Wieden, H.J.3    van Heel, M.4    Wintermeyer, W.5
  • 6
    • 0034691576 scopus 로고    scopus 로고
    • A ratchet-like intersubunit reorganization of the ribosome during translocation
    • Frank,J. and Agrawal,R.K. (2000) A ratchet-like intersubunit reorganization of the ribosome during translocation. Nature, 406 318-322.
    • (2000) Nature , vol.406 , pp. 318-322
    • Frank, J.1    Agrawal, R.K.2
  • 7
    • 0033548686 scopus 로고    scopus 로고
    • Fluorescence spectroscopy of single biomolecules
    • Weiss,S. (1999) Fluorescence spectroscopy of single biomolecules. Science, 283, 1676-1683.
    • (1999) Science , vol.283 , pp. 1676-1683
    • Weiss, S.1
  • 10
    • 0028883219 scopus 로고
    • Directed hydroxyl radical probing of 16S rRNA using Fe(II) tethered to ribosomal protein S4
    • Heilek,G.M., Marusak,R., Meares,C.F. and Noller,H.F. (1995) Directed hydroxyl radical probing of 16S rRNA using Fe(II) tethered to ribosomal protein S4. Proc. Natl Acad. Sci. USA, 92, 1113-1116.
    • (1995) Proc. Natl. Acad. Sci. USA , vol.92 , pp. 1113-1116
    • Heilek, G.M.1    Marusak, R.2    Meares, C.F.3    Noller, H.F.4
  • 11
    • 0019274775 scopus 로고
    • Distances between 3′ ends of ribosomal ribormcleic acids reassembled into Escherichia coli ribosomes
    • Odom,O.W.,Jr, Robbins,D.J., Lynch,J., Dottavio-Martin,D., Kramer,G. and Hardesty,B. (1980) Distances between 3′ ends of ribosomal ribormcleic acids reassembled into Escherichia coli ribosomes. Biochemistry, 19, 5947-5954.
    • (1980) Biochemistry , vol.19 , pp. 5947-5954
    • Odom Jr., O.W.1    Robbins, D.J.2    Lynch, J.3    Dottavio-Martin, D.4    Kramer, G.5    Hardesty, B.6
  • 13
    • 0342881009 scopus 로고
    • DNA hybridization electron microscopy: Ribosomal RNA nucleotides 1392-1407 are exposed in the cleft of the small subunit
    • Oakes,M.I., Clark,M.W., Henderson,E. and Lake,J.A. (1986) DNA hybridization electron microscopy: ribosomal RNA nucleotides 1392-1407 are exposed in the cleft of the small subunit. Proc. Natl Acad. Sci. USA, 83, 275-279.
    • (1986) Proc. Natl. Acad. Sci. USA , vol.83 , pp. 275-279
    • Oakes, M.I.1    Clark, M.W.2    Henderson, E.3    Lake, J.A.4
  • 14
    • 0345590989 scopus 로고
    • Involvement of bases 787-795 of Escherichia coli 16S ribosomal RNA in ribosomal subunit association
    • Tapprich,W.E. and Hill,W.E. (1986) Involvement of bases 787-795 of Escherichia coli 16S ribosomal RNA in ribosomal subunit association. Proc. Natl Acad. Sci. USA, 83, 556-560.
    • (1986) Proc. Natl. Acad. Sci. USA , vol.83 , pp. 556-560
    • Tapprich, W.E.1    Hill, W.E.2
  • 15
    • 0026602705 scopus 로고
    • Probing dynamic changes in rRNA conformation in the 30S subunit of the Escherichia coli ribosome
    • Weller,J.W. and Hill,W.E. (1992) Probing dynamic changes in rRNA conformation in the 30S subunit of the Escherichia coli ribosome. Biochemistry, 31, 2748-2757.
    • (1992) Biochemistry , vol.31 , pp. 2748-2757
    • Weller, J.W.1    Hill, W.E.2
  • 16
    • 0028079886 scopus 로고
    • Ribosomal components neighboring the conserved 518-533 loop of 16S rRNA in 30S subunits
    • Alexander,R.W., Muralikrishna,P. and Cooperman,B.S. (1994) Ribosomal components neighboring the conserved 518-533 loop of 16S rRNA in 30S subunits. Biochemistry, 33, 12109-12118.
    • (1994) Biochemistry , vol.33 , pp. 12109-12118
    • Alexander, R.W.1    Muralikrishna, P.2    Cooperman, B.S.3
  • 17
    • 0031789907 scopus 로고    scopus 로고
    • Flow cytometric analysis of the in situ accessibility of Escherichia coli 16S rRNA for fluorescently labeled oligonucleotide probes
    • Fuchs,B.M., Wallner,G., Beisker,W., Schwippl,I., Ludwig,W. and Amann,R. (1998) Flow cytometric analysis of the in situ accessibility of Escherichia coli 16S rRNA for fluorescently labeled oligonucleotide probes. Appl. Environ. Microbiol., 64 4973-4982.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 4973-4982
    • Fuchs, B.M.1    Wallner, G.2    Beisker, W.3    Schwippl, I.4    Ludwig, W.5    Amann, R.6
  • 18
    • 0035145060 scopus 로고    scopus 로고
    • In situ accessibility of Escherichia coli 23S rRNA to fluorescently labeled oligonucleotide probes
    • Fuchs,B.M., Syutsubo,K., Ludwig,W. and Amann,R. (2001) In situ accessibility of Escherichia coli 23S rRNA to fluorescently labeled oligonucleotide probes. Appl. Environ. Microbiol., 67 961-968.
    • (2001) Appl. Environ. Microbiol. , vol.67 , pp. 961-968
    • Fuchs, B.M.1    Syutsubo, K.2    Ludwig, W.3    Amann, R.4
  • 19
    • 0019358924 scopus 로고
    • Construction and fine mapping of recombinant plasmids containing the rrnB ribosomal RNA operon of E.coli
    • Brosius,J., Ullrich,A., Raker,M.A., Gray,A., Dull,T.J., Gutell,R.R. and Noller,H.F. (1981) Construction and fine mapping of recombinant plasmids containing the rrnB ribosomal RNA operon of E.coli. Plasmid, 6, 112-118.
    • (1981) Plasmid , vol.6 , pp. 112-118
    • Brosius, J.1    Ullrich, A.2    Raker, M.A.3    Gray, A.4    Dull, T.J.5    Gutell, R.R.6    Noller, H.F.7
  • 20
    • 0033515041 scopus 로고    scopus 로고
    • An Escherichia coli strain with all chromosomal rRNA operons inactivated: Complete exchange of rRNA genes between bacteria
    • Asai,T., Zaporojets,D., Squires,C. and Squires,C.L. (1999) An Escherichia coli strain with all chromosomal rRNA operons inactivated: complete exchange of rRNA genes between bacteria. Proc. Natl Acad. Sci. USA, 96, 1971-1976.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 1971-1976
    • Asai, T.1    Zaporojets, D.2    Squires, C.3    Squires, C.L.4
  • 21
    • 0025737972 scopus 로고
    • A functional pseudoknot in 16S ribosomal RNA
    • Powers,T. and Noller,H.F. (1991) A functional pseudoknot in 16S ribosomal RNA. EMBO J., 10, 2203-2214.
    • (1991) EMBO J. , vol.10 , pp. 2203-2214
    • Powers, T.1    Noller, H.F.2
  • 23
    • 0034716948 scopus 로고    scopus 로고
    • Interaction of translation initiation factor IF1 with the E.coli ribosomal A site
    • Dahlquist,K.D. and Puglisi,J.D. (2000) Interaction of translation initiation factor IF1 with the E.coli ribosomal A site. J. Mol. Biol., 299, 1-15.
    • (2000) J. Mol. Biol. , vol.299 , pp. 1-15
    • Dahlquist, K.D.1    Puglisi, J.D.2
  • 26
    • 0242399529 scopus 로고
    • Isolation and properties of protein factors involved in polypeptide chain initiation in Escherichia coli
    • Dubnoff,J.S. and Maitra,U. (1971) Isolation and properties of protein factors involved in polypeptide chain initiation in Escherichia coli. Meth. Enzymol., 20, 248-261.
    • (1971) Meth. Enzymol. , vol.20 , pp. 248-261
    • Dubnoff, J.S.1    Maitra, U.2
  • 28
    • 0014353212 scopus 로고
    • Studies on the thionucleotides in transfer ribonucleic acid. Addition of N-ethylmaleimide and formation of mixed disulfides with thiol compounds
    • Carbon,J. and David,H. (1968) Studies on the thionucleotides in transfer ribonucleic acid. Addition of N-ethylmaleimide and formation of mixed disulfides with thiol compounds. Biochemistry, 7, 3851-3858.
    • (1968) Biochemistry , vol.7 , pp. 3851-3858
    • Carbon, J.1    David, H.2
  • 29
    • 0019814934 scopus 로고
    • Gel electrophoretic studies on ribosomal protein L7/L12 and the Escherichia coli 50S subunit
    • Tokimatsu,H., Strycharz,W.A. and Dahlberg,A.E. (1981) Gel electrophoretic studies on ribosomal protein L7/L12 and the Escherichia coli 50S subunit. J. Mol. Biol., 152, 397-412.
    • (1981) J. Mol. Biol. , vol.152 , pp. 397-412
    • Tokimatsu, H.1    Strycharz, W.A.2    Dahlberg, A.E.3
  • 31
    • 0029873397 scopus 로고    scopus 로고
    • Rate of translation of natural mRNAs in an optimized in vitro system
    • Pavlov,M.Y. and Ehrenberg,M. (1996) Rate of translation of natural mRNAs in an optimized in vitro system. Arch. Biochem. Biophys., 328, 9-16.
    • (1996) Arch. Biochem. Biophys. , vol.328 , pp. 9-16
    • Pavlov, M.Y.1    Ehrenberg, M.2
  • 35
    • 0031462334 scopus 로고    scopus 로고
    • Measuring the thermodynamics of RNA secondary structure formation
    • SantaLucia,J.,Jr and Turner,D.H. (1997) Measuring the thermodynamics of RNA secondary structure formation. Biopolymers, 44, 309-319.
    • (1997) Biopolymers , vol.44 , pp. 309-319
    • SantaLucia Jr., J.1    Turner, D.H.2
  • 36
    • 0033572714 scopus 로고    scopus 로고
    • Direct three-dimensional localization and positive identification of RNA helices within the ribosome by means of genetic tagging and cryo-electron microscopy
    • Spahn,C.M.T., Grassucci,R.A., Penczek,P. and Frank,J. (1999) Direct three-dimensional localization and positive identification of RNA helices within the ribosome by means of genetic tagging and cryo-electron microscopy. Structure, 7, 1567-1573.
    • (1999) Structure , vol.7 , pp. 1567-1573
    • Spahn, C.M.T.1    Grassucci, R.A.2    Penczek, P.3    Frank, J.4
  • 38
    • 0038152834 scopus 로고    scopus 로고
    • Affinity purification of ribosomes with a lethal G2655C mutation in 23S rRNA that affects the translocation
    • Leonov,A.A., Sergiev,P.V., Bogdanov,A.A., Brimacombe,R. and Dontsova,O.A. (2003) Affinity purification of ribosomes with a lethal G2655C mutation in 23S rRNA that affects the translocation. J. Biol. Chem., 278, 25664-25670.
    • (2003) J. Biol. Chem. , vol.278 , pp. 25664-25670
    • Leonov, A.A.1    Sergiev, P.V.2    Bogdanov, A.A.3    Brimacombe, R.4    Dontsova, O.A.5
  • 39
    • 2542470615 scopus 로고    scopus 로고
    • The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release
    • Youngman,E.M., Brunelle,J.L., Kochaniak,A.B. and Green,R. (2004) The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release. Cell, 117, 589-599.
    • (2004) Cell , vol.117 , pp. 589-599
    • Youngman, E.M.1    Brunelle, J.L.2    Kochaniak, A.B.3    Green, R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.