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Volumn 17, Issue 5, 1998, Pages 1515-1525

Comparative photocross-linking analysis of the tertiary structures of escherichia coli and bacillus subtilis RNase P RNAs

Author keywords

Bacillus subtilis; Photoaffinity cross linking; Ribozyme; RNA structure; RNase P

Indexed keywords

BACTERIAL RNA; RIBONUCLEASE P; RNA PRECURSOR; TRANSFER RNA;

EID: 0032473358     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/17.5.1515     Document Type: Article
Times cited : (112)

References (41)
  • 1
    • 0027389799 scopus 로고
    • Recent studies of ribonuclease P
    • Altman,S., Kirsebom,L. and Talbot,S. (1993) Recent studies of ribonuclease P. FASEB J., 7, 7-14.
    • (1993) FASEB J. , vol.7 , pp. 7-14
    • Altman, S.1    Kirsebom, L.2    Talbot, S.3
  • 2
    • 0029935208 scopus 로고    scopus 로고
    • Comparative analysis of ribonuclease P RNA using gene sequences from natural microbial populations reveals tertiary structural elements
    • Brown,J.W., Nolan,J.M., Haas,E.S., Rubio,M.A.T., Major,F. and Pace,N.R. (1996) Comparative analysis of ribonuclease P RNA using gene sequences from natural microbial populations reveals tertiary structural elements. Proc. Natl Acad. Sci. USA, 93, 3001-3006.
    • (1996) Proc. Natl Acad. Sci. USA , vol.93 , pp. 3001-3006
    • Brown, J.W.1    Nolan, J.M.2    Haas, E.S.3    Rubio, M.A.T.4    Major, F.5    Pace, N.R.6
  • 3
    • 0025129447 scopus 로고
    • Mapping the active site of ribonuclease P RNA using a substrate containing a photoaffinity agent
    • Burgin,A.B. and Pace,N.R. (1990) Mapping the active site of ribonuclease P RNA using a substrate containing a photoaffinity agent. EMBO J., 9, 4111-4118.
    • (1990) EMBO J. , vol.9 , pp. 4111-4118
    • Burgin, A.B.1    Pace, N.R.2
  • 4
  • 6
    • 0031156668 scopus 로고    scopus 로고
    • Identification of the universally conserved core of ribonuclease P RNA
    • Chen,J.-L. and Pace,N.R. (1997) Identification of the universally conserved core of ribonuclease P RNA. RNA, 3, 557-560.
    • (1997) RNA , vol.3 , pp. 557-560
    • Chen, J.-L.1    Pace, N.R.2
  • 7
    • 0026536701 scopus 로고
    • Contributions of phylogenetically variable structural elements to the function of the ribozyme ribonuclease P
    • Darr,S.C., Zito,K., Smith,D. and Pace,N.R. (1992) Contributions of phylogenetically variable structural elements to the function of the ribozyme ribonuclease P. Biochemistry, 31, 328-333.
    • (1992) Biochemistry , vol.31 , pp. 328-333
    • Darr, S.C.1    Zito, K.2    Smith, D.3    Pace, N.R.4
  • 8
    • 0030918657 scopus 로고    scopus 로고
    • Ribonuclease P RNA: Models of the 15/16 bulge from Escherichia coli and the P15 stem loop of Bacillus subtilis
    • Easterwood,T.R. and Harvey,S.C. (1997) Ribonuclease P RNA: models of the 15/16 bulge from Escherichia coli and the P15 stem loop of Bacillus subtilis. RNA, 3, 577-585.
    • (1997) RNA , vol.3 , pp. 577-585
    • Easterwood, T.R.1    Harvey, S.C.2
  • 9
    • 0021870425 scopus 로고
    • Ion dependence of the Bacillus subtilis RNase P reaction
    • Gardiner,K.J., Marsh,T.L. and Pace,N.R. (1985) Ion dependence of the Bacillus subtilis RNase P reaction. J. Biol. Chem., 260, 5415-5419.
    • (1985) J. Biol. Chem. , vol.260 , pp. 5415-5419
    • Gardiner, K.J.1    Marsh, T.L.2    Pace, N.R.3
  • 10
    • 0028916219 scopus 로고
    • Identification of base-triples in RNA using comparative sequence analysis
    • Gautheret,D., Damberger,S.H. and Gutell,R.R. (1995) Identification of base-triples in RNA using comparative sequence analysis. J. Mol. Biol., 248, 27-43.
    • (1995) J. Mol. Biol. , vol.248 , pp. 27-43
    • Gautheret, D.1    Damberger, S.H.2    Gutell, R.R.3
  • 12
    • 0021013526 scopus 로고
    • The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
    • Guerrier-Takada,C., Gardiner,K., Marsh,T., Pace,N. and Altman,S. (1983) The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell, 35, 849-857.
    • (1983) Cell , vol.35 , pp. 849-857
    • Guerrier-Takada, C.1    Gardiner, K.2    Marsh, T.3    Pace, N.4    Altman, S.5
  • 13
    • 0028279011 scopus 로고
    • Further perspective on the catalytic core and secondary structure of ribonuclease P RNA
    • Haas,E.S., Brown,J.W., Pitulle,C. and Pace,N.R. (1994) Further perspective on the catalytic core and secondary structure of ribonuclease P RNA. Proc. Natl. Acad. Sci. USA, 91, 2527-2531.
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 2527-2531
    • Haas, E.S.1    Brown, J.W.2    Pitulle, C.3    Pace, N.R.4
  • 15
    • 0029803926 scopus 로고    scopus 로고
    • Structure and evolution of ribonuclease P RNA in Gram-positive bacteria
    • Haas,E.S., Banta,A.B., Harris,J.K., Pace,N.R. and Brown,J.W. (1996b) Structure and evolution of ribonuclease P RNA in Gram-positive bacteria. Nucleic Acids Res., 24, 4775-4782.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 4775-4782
    • Haas, E.S.1    Banta, A.B.2    Harris, J.K.3    Pace, N.R.4    Brown, J.W.5
  • 16
    • 0029286551 scopus 로고
    • Identification of phosphates involved in catalysis by the ribozyme RNase P RNA
    • Harris,M.E. and Pace,N.R. (1995) Identification of phosphates involved in catalysis by the ribozyme RNase P RNA. RNA, 1, 210-218.
    • (1995) RNA , vol.1 , pp. 210-218
    • Harris, M.E.1    Pace, N.R.2
  • 17
    • 0027990605 scopus 로고
    • Use of photoaffinity crosslinking and molecular modeling to analyze the global architecture of ribonuclease P RNA
    • Harris,M.E., Nolan,J.M., Malhotra,A., Brown,J.W., Harvey,S.C. and Pace,N.R. (1994) Use of photoaffinity crosslinking and molecular modeling to analyze the global architecture of ribonuclease P RNA. EMBO J., 13, 3953-3963.
    • (1994) EMBO J. , vol.13 , pp. 3953-3963
    • Harris, M.E.1    Nolan, J.M.2    Malhotra, A.3    Brown, J.W.4    Harvey, S.C.5    Pace, N.R.6
  • 18
    • 0031010235 scopus 로고    scopus 로고
    • Analysis of the tertiary structure of the ribonuclease P ribozyme-substrate complex by site-specific photoaffinity crosslinking
    • Harris,M.E., Kazantsev,A.V., Chen,J.-L. and Pace,N.R. (1997) Analysis of the tertiary structure of the ribonuclease P ribozyme-substrate complex by site-specific photoaffinity crosslinking. RNA, 3, 561-576.
    • (1997) RNA , vol.3 , pp. 561-576
    • Harris, M.E.1    Kazantsev, A.V.2    Chen, J.-L.3    Pace, N.R.4
  • 19
    • 0027973546 scopus 로고
    • Base pairing between Escherichia coli RNase P RNA and its substrate
    • Kirsebom,L.A. and Svard,S.G. (1994) Base pairing between Escherichia coli RNase P RNA and its substrate. EMBO J., 13, 4870-4876.
    • (1994) EMBO J. , vol.13 , pp. 4870-4876
    • Kirsebom, L.A.1    Svard, S.G.2
  • 20
    • 0028146083 scopus 로고
    • Phylogenetic comparative chemical footprint analysis of the interaction between ribonuclease P RNA and tRNA
    • LaGrandeur,T.E., Hüttenhofer,A., Noller,H.F. and Pace,N.R. (1994) Phylogenetic comparative chemical footprint analysis of the interaction between ribonuclease P RNA and tRNA. EMBO J., 13, 3945-3952.
    • (1994) EMBO J. , vol.13 , pp. 3945-3952
    • LaGrandeur, T.E.1    Hüttenhofer, A.2    Noller, H.F.3    Pace, N.R.4
  • 21
    • 0030452773 scopus 로고    scopus 로고
    • New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: A complete 3D model of the Tetrahymena thermophila ribozyme
    • Lehnert,V., Jaeger,L., Michel,F. and Westhof,E. (1996) New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: a complete 3D model of the Tetrahymena thermophila ribozyme. Chem Biol, 3, 993-1009.
    • (1996) Chem Biol , vol.3 , pp. 993-1009
    • Lehnert, V.1    Jaeger, L.2    Michel, F.3    Westhof, E.4
  • 22
    • 0031009290 scopus 로고    scopus 로고
    • Recognition of the T stem-loop of a pre-tRNA substrate by the ribozyme from Bacillus subtilis ribonuclease P
    • Loria,A. and Pan,T. (1997) Recognition of the T stem-loop of a pre-tRNA substrate by the ribozyme from Bacillus subtilis ribonuclease P. Biochemistry, 36, 6317-6325.
    • (1997) Biochemistry , vol.36 , pp. 6317-6325
    • Loria, A.1    Pan, T.2
  • 23
    • 0028094855 scopus 로고
    • A quantitative model of the Escherichia coli 16S RNA in the 30S ribosomal subunit
    • Malhotra,A. and Harvey,S.C. (1994) A quantitative model of the Escherichia coli 16S RNA in the 30S ribosomal subunit. J. Mol. Biol., 240, 308-340.
    • (1994) J. Mol. Biol. , vol.240 , pp. 308-340
    • Malhotra, A.1    Harvey, S.C.2
  • 24
    • 0025236617 scopus 로고
    • Prediction of the three-dimensional structure of Escherichia coli 30S ribosomal subunit: A molecular mechanics approach
    • Malhotra,A., Tan,R.K. and Harvey,S.C. (1990) Prediction of the three-dimensional structure of Escherichia coli 30S ribosomal subunit: a molecular mechanics approach. Proc. Natl Acad. Sci. USA, 87, 1950-1954.
    • (1990) Proc. Natl Acad. Sci. USA , vol.87 , pp. 1950-1954
    • Malhotra, A.1    Tan, R.K.2    Harvey, S.C.3
  • 25
    • 0028338898 scopus 로고
    • Modeling large RNAs and ribonucleoprotein particles using molecular mechanics techniques
    • Malhotra,A., Tan,R. and Harvey,S.C. (1994) Modeling large RNAs and ribonucleoprotein particles using molecular mechanics techniques. Biophys. J., 66, 1777-1795.
    • (1994) Biophys. J. , vol.66 , pp. 1777-1795
    • Malhotra, A.1    Tan, R.2    Harvey, S.C.3
  • 26
    • 0031158312 scopus 로고    scopus 로고
    • Phylogenetic evidence for a new tertiary interaction in bacterial RNase P RNAs
    • Massire,C., Jaeger,L. and Westhof,E. (1997) Phylogenetic evidence for a new tertiary interaction in bacterial RNase P RNAs. RNA, 3, 553-556.
    • (1997) RNA , vol.3 , pp. 553-556
    • Massire, C.1    Jaeger, L.2    Westhof, E.3
  • 27
    • 0024819449 scopus 로고
    • Synthesis of small RNAs using T7 RNA polymerase
    • Milligan,J.F. and Uhlenbeck,O.C. (1989) Synthesis of small RNAs using T7 RNA polymerase. Methods Enzymol., 164, 51-62.
    • (1989) Methods Enzymol. , vol.164 , pp. 51-62
    • Milligan, J.F.1    Uhlenbeck, O.C.2
  • 28
    • 0028301674 scopus 로고
    • GAAA tetraloop and conserved bulge stabilize tertiary structure of a group I intron domain
    • Murphy,F.L. and Cech,T.R. (1994) GAAA tetraloop and conserved bulge stabilize tertiary structure of a group I intron domain. J. Mol. Biol., 236, 49-63.
    • (1994) J. Mol. Biol. , vol.236 , pp. 49-63
    • Murphy, F.L.1    Cech, T.R.2
  • 29
    • 0027182379 scopus 로고
    • Circularly permuted tRNAs as specific photoaffinity probes of ribonuclease P RNA structure
    • Nolan,J.M., Burke,D.H. and Pace,N.R. (1993) Circularly permuted tRNAs as specific photoaffinity probes of ribonuclease P RNA structure. Science, 261, 762-765.
    • (1993) Science , vol.261 , pp. 762-765
    • Nolan, J.M.1    Burke, D.H.2    Pace, N.R.3
  • 30
    • 0028131972 scopus 로고
    • Interaction of the 3′-end of tRNA with ribonuclease P RNA
    • Oh,B.-K. and Pace,N.R. (1994) Interaction of the 3′-end of tRNA with ribonuclease P RNA. Nucleic Acids Res., 22, 4087-4094.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4087-4094
    • Oh, B.-K.1    Pace, N.R.2
  • 31
    • 0028962136 scopus 로고
    • Evolutionary perspective on the structure and function of ribonuclease P, a ribozyme
    • Pace,N.R. and Brown,J.W. (1995) Evolutionary perspective on the structure and function of ribonuclease P, a ribozyme. J. Bacteriol., 117, 1919-1928.
    • (1995) J. Bacteriol. , vol.117 , pp. 1919-1928
    • Pace, N.R.1    Brown, J.W.2
  • 32
    • 0028088780 scopus 로고
    • Selection of circularly permuted ribozymes from Bacillus subtilis RNase P by substrate binding
    • Pan,T. and Zhong,K. (1994) Selection of circularly permuted ribozymes from Bacillus subtilis RNase P by substrate binding. Biochemistry, 33, 14207-14212.
    • (1994) Biochemistry , vol.33 , pp. 14207-14212
    • Pan, T.1    Zhong, K.2
  • 33
    • 0029556990 scopus 로고
    • Probing of tertiary interactions in RNA: 2′-hydroxyl-base contacts between the RNase P RNA and pretRNA
    • Pan,T., Loria,A. and Zhong,K. (1995) Probing of tertiary interactions in RNA: 2′-hydroxyl-base contacts between the RNase P RNA and pretRNA. Proc. Natl Acad. Sci. USA, 92, 12510-12514.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 12510-12514
    • Pan, T.1    Loria, A.2    Zhong, K.3
  • 34
    • 0022977851 scopus 로고
    • The RNA component of the Bacillus subtilis RNase P: Sequence, activity, and partial secondary structure
    • Reich,C., Gardiner,K.J., Olsen,G.J., Pace,B., Marsh,T.L. and Pace,N.R. (1986) The RNA component of the Bacillus subtilis RNase P: sequence, activity, and partial secondary structure. J. Biol. Chem., 261, 7888-7893.
    • (1986) J. Biol. Chem. , vol.261 , pp. 7888-7893
    • Reich, C.1    Gardiner, K.J.2    Olsen, G.J.3    Pace, B.4    Marsh, T.L.5    Pace, N.R.6
  • 37
    • 0029853929 scopus 로고    scopus 로고
    • Mycoplasma fermentans simplifies our view of the catalytic core of ribonuclease P RNA
    • Siegel,R.W., Banta,A.B., Haas,E.S., Brown,J.W. and Pace,N.R. (1996) Mycoplasma fermentans simplifies our view of the catalytic core of ribonuclease P RNA. RNA, 2, 452-462.
    • (1996) RNA , vol.2 , pp. 452-462
    • Siegel, R.W.1    Banta, A.B.2    Haas, E.S.3    Brown, J.W.4    Pace, N.R.5
  • 38
    • 0000644984 scopus 로고
    • YAMMP: Development of a molecular mechanics program using the modular programming method
    • Tan,R.K. and Harvey,S.C. (1993) YAMMP: development of a molecular mechanics program using the modular programming method. J. Comput. Chem., 14, 455-470.
    • (1993) J. Comput. Chem. , vol.14 , pp. 455-470
    • Tan, R.K.1    Harvey, S.C.2
  • 39
    • 0029312237 scopus 로고
    • An important RNA tertiary interaction of group I and group II introns is implicated in Gram-positive RNase P RNAs
    • Tanner,M.A. and Cech,T.R. (1995) An important RNA tertiary interaction of group I and group II introns is implicated in Gram-positive RNase P RNAs. RNA, 1, 349-350.
    • (1995) RNA , vol.1 , pp. 349-350
    • Tanner, M.A.1    Cech, T.R.2
  • 40
    • 0027389805 scopus 로고
    • Gap-scan deletion analysis of Bacillus subtilis RNase P RNA
    • Waugh,D.S. and Pace,N.R. (1993) Gap-scan deletion analysis of Bacillus subtilis RNase P RNA. FASEB J., 7, 188-195.
    • (1993) FASEB J. , vol.7 , pp. 188-195
    • Waugh, D.S.1    Pace, N.R.2
  • 41
    • 0029864990 scopus 로고    scopus 로고
    • The P9.1-P9.2 peripheral extension helps guide folding of the Tetrahymena ribozyme
    • Zarrinkar,P.P. and Williamson,J.R. (1996) The P9.1-P9.2 peripheral extension helps guide folding of the Tetrahymena ribozyme. Nucleic Acids Res., 24, 854-858.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 854-858
    • Zarrinkar, P.P.1    Williamson, J.R.2


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