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Volumn 40, Issue 3, 2012, Pages 1318-1330

Three critical hydrogen bonds determine the catalytic activity of the Diels-Alderase ribozyme

Author keywords

[No Author keywords available]

Indexed keywords

DIELS ALDERASE RIBOZYME; RIBOZYME; TRANSFER RNA; UNCLASSIFIED DRUG;

EID: 84856813184     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr812     Document Type: Article
Times cited : (21)

References (41)
  • 1
    • 0037062949 scopus 로고    scopus 로고
    • The chemical repertoire of natural ribozymes
    • Doudna, J. A. and Cech, T. R. (2002) The chemical repertoire of natural ribozymes. Nature, 418, 222-228.
    • (2002) Nature , vol.418 , pp. 222-228
    • Doudna, J.A.1    Cech, T.R.2
  • 2
    • 20444502087 scopus 로고    scopus 로고
    • Structure, folding and mechanisms of ribozymes
    • Lilley, D. M. (2005) Structure, folding and mechanisms of ribozymes. Curr. Opin. Struct. Biol., 15, 313-323.
    • (2005) Curr. Opin. Struct. Biol , vol.15 , pp. 313-323
    • Lilley, D.M.1
  • 5
    • 0033102314 scopus 로고    scopus 로고
    • A small catalytic RNA motif with Diels-Alderase activity
    • Seelig, B. and Jáschke, A. (1999) A small catalytic RNA motif with Diels-Alderase activity. Chem. Biol., 6, 167-176.
    • (1999) Chem. Biol , vol.6 , pp. 167-176
    • Seelig, B.1    Jáschke, A.2
  • 6
    • 0030963855 scopus 로고    scopus 로고
    • RNA-catalysed carbon-carbon bond formation
    • Tarasow, T. M., Tarasow, S. L. and Eaton, B. E. (1997) RNA-catalysed carbon-carbon bond formation. Nature, 389, 54-57.
    • (1997) Nature , vol.389 , pp. 54-57
    • Tarasow, T.M.1    Tarasow, S.L.2    Eaton, B.E.3
  • 8
    • 0034671737 scopus 로고    scopus 로고
    • Enantioselective ribozyme catalysis of a bimolecular cycloaddition reaction
    • Seelig, B., Keiper, S., Stuhlmann, F. and Jáschke, A. (2000) Enantioselective ribozyme catalysis of a bimolecular cycloaddition reaction. Angew. Chem. Int. Ed. Engl., 39, 4576-4579.
    • (2000) Angew. Chem. Int. Ed. Engl , vol.39 , pp. 4576-4579
    • Seelig, B.1    Keiper, S.2    Stuhlmann, F.3    Jáschke, A.4
  • 9
    • 0037012440 scopus 로고    scopus 로고
    • Characterization of an RNA active site: Interactions between a Diels-Alderase ribozyme and its substrates and products
    • Stuhlmann, F. and Jáschke, A. (2002) Characterization of an RNA active site: interactions between a Diels-Alderase ribozyme and its substrates and products. J. Am. Chem. Soc., 124, 3238-3244.
    • (2002) J. Am. Chem. Soc , vol.124 , pp. 3238-3244
    • Stuhlmann, F.1    Jáschke, A.2
  • 10
    • 4644305780 scopus 로고    scopus 로고
    • Architecture of a Diels-Alderase ribozyme with a preformed catalytic pocket
    • Keiper, S., Bebenroth, D., Seelig, B., Westhof, E. and Jáschke, A. (2004) Architecture of a Diels-Alderase ribozyme with a preformed catalytic pocket. Chem. Biol., 11, 1217-1227.
    • (2004) Chem. Biol , vol.11 , pp. 1217-1227
    • Keiper, S.1    Bebenroth, D.2    Seelig, B.3    Westhof, E.4    Jáschke, A.5
  • 12
    • 34247848007 scopus 로고    scopus 로고
    • Mg2+-dependent folding of a Diels-Alderase ribozyme probed by single-molecule FRET analysis
    • Kobitski, A. Y., Nierth, A., Helm, M., Jáschke, A. and Nienhaus, G. U. (2007) Mg2+-dependent folding of a Diels-Alderase ribozyme probed by single-molecule FRET analysis. Nucleic Acids Res., 35, 2047-2059.
    • (2007) Nucleic Acids Res , vol.35 , pp. 2047-2059
    • Kobitski, A.Y.1    Nierth, A.2    Helm, M.3    Jáschke, A.4    Nienhaus, G.U.5
  • 13
    • 70149105259 scopus 로고    scopus 로고
    • Metal-induced folding of Diels-Alderase ribozymes studied by static and time-resolved NMR spectroscopy
    • Manoharan, V., Fürtig, B., Jáschke, A. and Schwalbe, H. (2009) Metal-induced folding of Diels-Alderase ribozymes studied by static and time-resolved NMR spectroscopy. J. Am. Chem. Soc., 131, 6261-6270.
    • (2009) J. Am. Chem. Soc , vol.131 , pp. 6261-6270
    • Manoharan, V.1    Fürtig, B.2    Jáschke, A.3    Schwalbe, H.4
  • 14
    • 85013257546 scopus 로고    scopus 로고
    • Characterizing multiple metal ion binding sites within a ribozyme by Cadmium-induced EPR silencing
    • Kisseleva, N., Kraut, S., Jáschke, A. and Schiemann, O. (2007) Characterizing multiple metal ion binding sites within a ribozyme by Cadmium-induced EPR silencing. HFSP J., 1, 127-136.
    • (2007) HFSP J , vol.1 , pp. 127-136
    • Kisseleva, N.1    Kraut, S.2    Jáschke, A.3    Schiemann, O.4
  • 15
    • 77956422614 scopus 로고    scopus 로고
    • Magnesium-dependent active-site conformational selection in the Diels-Alderase ribozyme
    • Berezniak, T., Zahran, M., Imhof, P., Jáschke, A. and Smith, J. C. (2010) Magnesium-dependent active-site conformational selection in the Diels-Alderase ribozyme. J. Am. Chem. Soc., 132, 12587-12596.
    • (2010) J. Am. Chem. Soc , vol.132 , pp. 12587-12596
    • Berezniak, T.1    Zahran, M.2    Imhof, P.3    Jáschke, A.4    Smith, J.C.5
  • 16
    • 0023651444 scopus 로고
    • Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates
    • Milligan, J. F., Groebe, D. R., Witherell, G. W. and Uhlenbeck, O. C. (1987) Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates. Nucleic Acids Res., 15, 8783-8798.
    • (1987) Nucleic Acids Res , vol.15 , pp. 8783-8798
    • Milligan, J.F.1    Groebe, D.R.2    Witherell, G.W.3    Uhlenbeck, O.C.4
  • 17
    • 0344731429 scopus 로고    scopus 로고
    • Ternary conjugates of guanosine monophosphate as initiator nucleotides for the enzymatic synthesis of 5'-modified RNAs
    • Seelig, B. and Jáschke, A. (1999) Ternary conjugates of guanosine monophosphate as initiator nucleotides for the enzymatic synthesis of 5'-modified RNAs. Bioconjug. Chem., 10, 371-378.
    • (1999) Bioconjug. Chem , vol.10 , pp. 371-378
    • Seelig, B.1    Jáschke, A.2
  • 19
  • 20
    • 0032860382 scopus 로고    scopus 로고
    • Nucleotide analog interference mapping
    • Ryder, S. P. and Strobel, S. A. (1999) Nucleotide analog interference mapping. Methods, 18, 38-50.
    • (1999) Methods , vol.18 , pp. 38-50
    • Ryder, S.P.1    Strobel, S.A.2
  • 21
    • 0030965811 scopus 로고    scopus 로고
    • Defining the chemical groups essential for Tetrahymena group i intron function by nucleotide analog interference mapping
    • Strobel, S. A. and Shetty, K. (1997) Defining the chemical groups essential for Tetrahymena group I intron function by nucleotide analog interference mapping. Proc. Natl Acad. Sci. USA, 94, 2903-2908.
    • (1997) Proc. Natl Acad. Sci. USA , vol.94 , pp. 2903-2908
    • Strobel, S.A.1    Shetty, K.2
  • 22
    • 0037133526 scopus 로고    scopus 로고
    • PK(a) perturbation in genomic Hepatitis Delta Virus ribozyme catalysis evidenced by nucleotide analogue interference mapping
    • Oyelere, A. K., Kardon, J. R. and Strobel, S. A. (2002) pK(a) perturbation in genomic Hepatitis Delta Virus ribozyme catalysis evidenced by nucleotide analogue interference mapping. Biochemistry, 41, 3667-3675.
    • (2002) Biochemistry , vol.41 , pp. 3667-3675
    • Oyelere, A.K.1    Kardon, J.R.2    Strobel, S.A.3
  • 23
    • 77958485955 scopus 로고    scopus 로고
    • Efficient photoactivation of a Diels-Alderase ribozyme
    • Nierth, A., Singer, M. and Jáschke, A. (2010) Efficient photoactivation of a Diels-Alderase ribozyme. Chem. Commun. (Camb), 46, 7975-7977.
    • (2010) Chem. Commun. (Camb) , vol.46 , pp. 7975-7977
    • Nierth, A.1    Singer, M.2    Jáschke, A.3
  • 24
    • 46749085102 scopus 로고    scopus 로고
    • Sculpting an RNA conformational energy landscape by a methyl group modification-a single-molecule FRET study
    • Kobitski, A. Y., Hengesbach, M., Helm, M. and Nienhaus, G. U. (2008) Sculpting an RNA conformational energy landscape by a methyl group modification-a single-molecule FRET study. Angew. Chem. Int. Ed. Engl., 47, 4326-4330.
    • (2008) Angew. Chem. Int. Ed. Engl , vol.47 , pp. 4326-4330
    • Kobitski, A.Y.1    Hengesbach, M.2    Helm, M.3    Nienhaus, G.U.4
  • 25
    • 77649322407 scopus 로고    scopus 로고
    • Anthracene-BODIPY dyads as fluorescent sensors for biocatalytic Diels-Alder reactions
    • Nierth, A., Kobitski, A. Y., Nienhaus, G. U. and Jáschke, A. (2010) Anthracene-BODIPY dyads as fluorescent sensors for biocatalytic Diels-Alder reactions. J. Am. Chem. Soc., 132, 2646-2654.
    • (2010) J. Am. Chem. Soc , vol.132 , pp. 2646-2654
    • Nierth, A.1    Kobitski, A.Y.2    Nienhaus, G.U.3    Jáschke, A.4
  • 26
    • 0003845223 scopus 로고    scopus 로고
    • 1beta4, Schrödinger, LLC. 30 September 2011, date last accessed)
    • DeLano, W. L. (2002) The PyMOL Molecular Graphics System, Version 1. 1beta4, Schrödinger, LLC. http://www. pymol. org (30 September 2011, date last accessed).
    • (2002) The PyMOL Molecular Graphics System, Version 1
    • Delano, W.L.1
  • 27
    • 24044530426 scopus 로고    scopus 로고
    • Lead(II) cleavage analysis of RNase P RNA in vivo
    • Lindell, M., Brannvall, M., Wagner, E. G. and Kirsebom, L. A. (2005) Lead(II) cleavage analysis of RNase P RNA in vivo. RNA, 11, 1348-1354.
    • (2005) RNA , vol.11 , pp. 1348-1354
    • Lindell, M.1    Brannvall, M.2    Wagner, E.G.3    Kirsebom, L.A.4
  • 28
    • 0035925122 scopus 로고    scopus 로고
    • Stability and structure of RNA duplexes containing isoguanosine and isocytidine
    • Chen, X., Kierzek, R. and Turner, D. H. (2001) Stability and structure of RNA duplexes containing isoguanosine and isocytidine. J. Am. Chem. Soc., 123, 1267-1274.
    • (2001) J. Am. Chem. Soc , vol.123 , pp. 1267-1274
    • Chen, X.1    Kierzek, R.2    Turner, D.H.3
  • 32
    • 0032549776 scopus 로고    scopus 로고
    • Immunological origins of binding and catalysis in a Diels-Alderase antibody
    • Romesberg, F. E., Spiller, B., Schultz, P. G. and Stevens, R. C. (1998) Immunological origins of binding and catalysis in a Diels-Alderase antibody. Science, 279, 1929-1933.
    • (1998) Science , vol.279 , pp. 1929-1933
    • Romesberg, F.E.1    Spiller, B.2    Schultz, P.G.3    Stevens, R.C.4
  • 33
    • 0030037035 scopus 로고    scopus 로고
    • Energetic effects of multiple hydrogen bonds. Implications for enzymatic catalysis
    • Shan, S. O. and Herschlag, D. (1996) Energetic effects of multiple hydrogen bonds. Implications for enzymatic catalysis. J. Am. Chem. Soc., 24, 5515-5517.
    • (1996) J. Am. Chem. Soc , vol.24 , pp. 5515-5517
    • Shan, S.O.1    Herschlag, D.2
  • 34
    • 58549119994 scopus 로고    scopus 로고
    • The UA-handle: A versatile submotif in stable RNA architectures
    • Jaeger, L., Verzemnieks, E. J. and Geary, C. (2009) The UA-handle: a versatile submotif in stable RNA architectures. Nucleic Acids Res., 37, 215-230.
    • (2009) Nucleic Acids Res , vol.37 , pp. 215-230
    • Jaeger, L.1    Verzemnieks, E.J.2    Geary, C.3
  • 35
    • 0242317693 scopus 로고    scopus 로고
    • Importance of the reverse Hoogsteen base pair 54-58 for tRNA function
    • Zagryadskaya, E. I., Doyon, F. R. and Steinberg, S. V. (2003) Importance of the reverse Hoogsteen base pair 54-58 for tRNA function. Nucleic Acids Res., 31, 3946-3953.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3946-3953
    • Zagryadskaya, E.I.1    Doyon, F.R.2    Steinberg, S.V.3
  • 36
    • 0038475947 scopus 로고    scopus 로고
    • On the occurrence of the T-loop RNA folding motif in large RNA molecules
    • Krasilnikov, A. S. and Mondragon, A. (2003) On the occurrence of the T-loop RNA folding motif in large RNA molecules. RNA, 9, 640-643.
    • (2003) RNA , vol.9 , pp. 640-643
    • Krasilnikov, A.S.1    Mondragon, A.2
  • 37
    • 0036717041 scopus 로고    scopus 로고
    • Frequent occurrence of the T-loop RNA folding motif in ribosomal RNAs
    • Nagaswamy, U. and Fox, G. E. (2002) Frequent occurrence of the T-loop RNA folding motif in ribosomal RNAs. RNA, 8, 1112-1119.
    • (2002) RNA , vol.8 , pp. 1112-1119
    • Nagaswamy, U.1    Fox, G.E.2
  • 39
    • 0035863772 scopus 로고    scopus 로고
    • TectoRNA: Modular assembly units for the construction of RNA nano-objects
    • Jaeger, L., Westhof, E. and Leontis, N. B. (2001) TectoRNA: modular assembly units for the construction of RNA nano-objects. Nucleic Acids Res., 29, 455-463.
    • (2001) Nucleic Acids Res , vol.29 , pp. 455-463
    • Jaeger, L.1    Westhof, E.2    Leontis, N.B.3


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