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2001 | 48 | 2 |

Tytuł artykułu

Ribozymes of the hepatitis delta virus: Recent findings on their structure, mechanism of catalysis and possible applications

Warianty tytułu

Języki publikacji

EN

Abstrakty

EN
Although the delta ribozymes have been stud ied for more than ten years the most im- por tant in for ma tion con cern ing their struc ture and mech a nism of ca tal y sis were only ob tained very re cently. The crys tal struc ture of the genomic delta ribozyme turns out to be an ex cel lent ex am ple of the ex traor di nary prop er ties of RNA mol e cules to fold into uniquely com pact struc tures. De tails of the X-ray struc ture have greatly stim u- lated fur ther stud ies on the fold ing of the ribozymes into func tion ally ac tive mol e cules as well as on the mech a nism of RNA ca tal y sis. The abil ity of the delta ribozymes to carry out gen eral acid-base ca tal y sis by nu cle o tide side chains has been as sumed in two pro posed mech a nisms of self-cleavage. Re cently, con sid er able prog ress has been also made in char ac ter iz ing the cat a lytic prop er ties of trans-act ing ribozyme vari ants that are po ten tially at trac tive tools in the strat egy of di rected RNA degradation.

Wydawca

-

Rocznik

Tom

48

Numer

2

Opis fizyczny

p.409-418,fig.

Twórcy

autor
  • Polish Academy of Sciences, Z.Noskowskiego 12-14, 61-704 Poznan, Poland
autor
autor

Bibliografia

  • 1.Ananvoranich, S., Lafontaine, D.A. & Perreault, J. (1999) Mutational analysis of the antigenomic trans-acting delta ribozyme: The alterations of the middle nucleotides located on the P1 stem. Nucleic Acids Res. 27, 1473-1479.
  • 2.Ananvoranich, S. & Perreault, J. (1998) Substrate specificity of delta ribozyme cleavage. J. Biol. Chem. 273, 13182-13188.
  • 3.Ananvoranich, S. & Perreault, J. (2000) The kinetics and magnesium requirements for the folding of antigenomic delta ribozymes. Biochem. Biophys. Res. Commun. 270, 600-607.
  • 4.Ban, N., Nissen, P., Hansen, J., Moore, P.B. & Steitz, T.A. (2000) The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science 289, 905-920.
  • 5.Been, M.D. (1994) Cis- and trans-acting ribozymes from a human pathogen, hepatitis delta virus. Trends Biochem. Sci. 19, 251-256.
  • 6.Been, M.D. & Wickham, G.S. (1997) The self cleaving ribozymes of hepatitis delta virus. Eur. J. Biochem. 247, 741-753.
  • 7.Branch, A.D., Levine, B.J. & Robertson, H.D. (1991) The delta agent: A human pathogen with similarities to viroids and circular satellite RNAs; in Viroids and Satellites: Molecular Parasites at the Frontier of Life (Maramorosch, K., ed.) pp. 159-169, CRC Press, Inc.
  • 8.Chadalavada, D.M., Knudsen, S.M., Nakano, S. & Bevilacqua, P.C. (2000) A role for upstream RNA structure in facilitating the catalytic fold of the genomic hepatitis delta virus ribozyme. J. Mol. Biol. 301, 349-367.
  • 9.Ciesiolka, J. (1999) Metal-ion induced cleavages in probing of RNA structure; in RNA Biochemistry and Biotechnology (Barciszewski, J. & Clark, B.F.C., eds.) pp. 111-122, Kluwer Academic Publishers.
  • 10.Deschenes, P., Lafontaine, D.A., Charland, S. & Perreault, J. (2000) Nucleotides -1 to -4 of hepatitis delta ribozyme substrate increase the specificity of ribozyme cleavage. Antisense & Nucleic Acid Drug Dev\ 9, 105-116.
  • 11.Ferre-D'Amare, A.R. & Doudna, J.A. (2000) Crystallization and structure determination of a hepatitis delta virus ribozyme: Use of the RNA-binding protein U1A as a crystallization module. J. Mol. Biol. 295, 541-556.
  • 12.Ferre-D'Amare, A.R., Zhou, K. & Doudna, J.A. (1998) Crystal structure of a hepatitis delta virus ribozyme. Nature 395, 567-574.
  • 13.Filipovska, J. & Konarska, M.M. (2000) Specific HDV RNA-templated transciption by pol II in vitro. RNA 6, 41-54.
  • 14.Govindarayan, S., Hwang, S.B. & Lai, M.M.C. (1993) Comparison of the presence of two forms of delta antigen in liver tissues of acute versus chronic delta hepatitis; in Hepatitis Delta Virus (Hadziyannis, S.J., Taylor, J.M. & Bonino, F., eds.) pp. 139-143, Wiley.
  • 15.Hanna, R. & Doudna, J.A. (2000) Metal ions in ribozyme folding and catalysis. Curr. Opin. Chem. Biol. 4, 166-170.
  • 16.Isambert, H. & Siggia, E.D. (2000) Modeling RNA folding paths with pseudoknots: Application to hepatitis delta virus ribozyme. Proc. Natl. Acad. Sci. U.S.A. 97, 6515-6520.
  • 17.Lafontaine, D.A., Ananvoranich, S. & Perreault, J. (1999) Presence of a coordinated metal ion in a trans-acting antigenomic delta ribozyme. Nucleic Acids Res. 27, 3236-3243.
  • 18.Lai, M.M.C. (1995) The molecular biology of hepatitis delta virus. Annu. Rev. Biochem. 64, 259-286.
  • 19.Lazinski, D.W. & Taylor, J.M. (1995) Regulation of the hepatitis delta virus ribozymes: To cleave or not to cleave? RNA 1, 225-233.
  • 20.Matysiak, M., Wrzesinski, J. & Ciesiolka, J. (1999) Sequential folding of the genomic ribozyme of the hepatitis delta virus: Structural analysis of RNA transcription intermediates. J. Mol. Biol. 291, 283-294.
  • 21.Mercure, S., Lafontaine, D.A., Ananvoranich, S. & Perreault, J. (1998) Kinetic analysis of delta ribozyme cleavage. Biochemistry 37, 16975- 16982.
  • 22.Mir, K.U. & Southern, E.M. (1999) Determining the influence of structure on hybridization using oligonucleotide arrays. Nat. Biotechnology 17, 788-792.
  • 23.Modahl, L.E. & Lai, M.M.C. (1998) Transcription of hepatitis delta antigen mRNA continues throughout hepatitis delta virus replication: A new model of HDV RNA transcription and replication. J. Virol. 72, 5449-5456.
  • 24.Modahl, L.E. & Lai, M.M.C. (2000) The large delta antigen of hepatitis delta virus potently inhibits genomic but not antigenomic RNA synthesis: A mechanism enabling initiation of viral replication. J. Virol. 74, 7375-7380.
  • 25.Murray, J.B., Seyhan, A.A., Walter, N.G., Burke, J.M. & Scott, W.G. (1998) The hammerhead, hairpin and VS ribozymes are catalytically proficient in monovalent cations alone. Chem. Biol. 5, 587-595.
  • 26.Muth, G.W., Ortoleva-Donnelly, L. & Strobel, S.A. (2000) A single adenosine with a neutral pKa in the ribosomal peptidyl transferase center. Science 289, 947-950.
  • 27.Nakano, S., Chadalavada, D.M. & Bevilacqua, P.C. (2000) General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme. Science 287, 1493-1497.
  • 28.Nishikawa, F., Fauzi, H. & Nishikawa, S. (1997) Detailed analysis of base preferences at the cleavage site of a trans-acting HDV ribozyme: A mutation that changes cleavage site specificity. Nucleic Acids Res. 25, 1605-1610.
  • 29.Nishikawa, F. & Nishikawa, S. (2000) Requirement for canonical base pairing in the short pseudoknot structure of genomic hepatitis delta virus ribozyme. Nucleic Acids Res. 28, 925-931.
  • 30.Nishikawa, F., Roy, M., Fauzi, H. & Nishikawa, S. (1999) Detailed analysis of stem I and its 5' and 3' neighbor regions in the trans-acting HDV ribozyme. Nucleic Acids Res. 27, 403-410.
  • 31.Nissen, P., Hansen, J., Ban, N., Moore, P.B. & Steitz, T.A. (2000) The structural basis of ribosome activity in peptide bond synthesis. Science 289, 920-930.
  • 32.Perrotta, A.T. & Been, M.D. (1991) A pseudoknot-like structure required for efficient self- cleavage of hepatitis delta virus RNA. Nature 350, 434-436.
  • 33.Perrotta, A.T. & Been, M.D. (1998) A toggle duplex in hepatitis delta virus self-cleaving RNA that stabilizes an inactive and a salt-dependent pro-active ribozyme conformation. J. Mol. Biol. 279, 361-373.
  • 34.Perrotta, A.T., Shih, I. & Been, M.D. (1999) Imidazole rescue of a cytosine mutation in a self-cleaving ribozyme. Science 286, 123-126.
  • 35.Perrotta, A.T., Nikiforova, O. & Been, M.D. (1999a) A conserved bulged adenosine in a peripheral duplex of the antigenomic HDV self-cleaving RNA reduces kinetic trapping of inactive conformations. Nucleic Acids Res. 27, 795-802.
  • 36.Robertson, H.D. (1992) Replication and evolution of viroid-like pathogens. Curr. Top. Microbiol. Immunol. 176, 213-219.
  • 37.Rogers, J., Chang, A.H., von Ahsen, U., Schroeder, R. & Davies, J. (1996) Inhibition of the self-cleavage reaction of the human hepatitis delta virus ribozyme by antibiotics. J. Mol. Biol. 259, 916-925.
  • 38.Rosenstein, S.P. & Been, M.D. (1991) Evidence that genomic and antigenomic RNA self-cleaving elements from hepatitis delta virus have similar secondary structures. Nucleic Acids Res. 19, 5409-5416.
  • 39.Roy, G., Ananvoranich, S. & Perreault, J. (1999) Delta ribozyme has the ability to cleave in trans an mRNA. Nucleic Acids Res. 27, 942-948.
  • 40.Shih, I. & Been, M.D. (1999) Ribozyme cleavage of a 2',5'-phosphodiester linkage: Mechanism and a restricted divalent metal-ion requirement. RNA 5, 1140-1148.
  • 41.Shih, I. & Been, M.D. (2000) Kinetic scheme for intermolecular RNA cleavage by a ribozyme derived from hepatitis delta virus RNA. Biochemistry 39, 9055-9066.
  • 42.Soukup, G.A. & Breaker, R.R. (1999) Relationship between internucleotide linkage geometry and the stability of RNA. RNA 5, 1308-1325.
  • 43.Symons, R.H. (1992) Small catalytic RNAs. Annu. Rev. Biochem. 61, 641-671.
  • 44.Tanner, N.K. (1995) The catalytic RNAs from hepatitis delta virus: Structure, functions, and applications; in The Unique Hepatitis Delta Virus (Dinter-Gottlieb, G., ed.) pp. 11-29, Springer­Verlag, New York.
  • 45.Taylor, J.M. (1991) Human hepatitis delta virus. Curr. Top. Microbiol. Immunol. 168, 141-166.
  • 46.Taylor, J.M. (1992) The structure and replication of hepatitis delta virus. Annu. Rev. Microbiol. 46, 253-276.
  • 47.Taylor, J.M. (1993) Genetic organization and replication strategy of hepatitis delta virus. Semin. Virol. 4, 313-317.
  • 48.Taylor, J.M. (1996) Hepatitis delta virus and its replication; in Fields Virology (Fields, B.N., Knipe, D.M., Howley, P.M., et al., eds.), Lippincott-Raven, Philadelphia.
  • 49.Taylor, J.M. (1999a) Hepatitis delta virus. Intervirology 42, 73-178.
  • 50.Taylor, J.M. (1999b) Replication of human hepatitis delta virus: Influence of studies on subviral plant pathogens. Adv. Virus Res. 54, 45-60.
  • 51.Wadkins, T.S., Perrotta, A.T., Ferre-D'Amare, A.R., Doudna, J.A. & Been, M.D. (1999) A nested double pseudoknot is required for self-cleavage activity of both the genomic and antigenomic hepatitis delta virus ribozymes. RNA 5, 720-727.
  • 52.Warashina, M., Takagi, Y., Stec, W.J. & Taira, K. (2000) Differences among mechanisms of ribozyme-catalyzed reactions. Curr. Opin. Biotechnol. 11, 354-362.
  • 53.Wrzesinski, J., Legiewicz, M. & Ciesiolka, J. (2000) Mapping of accessible sites for oligonucleotide hybridization on hepatitis delta virus ribozymes. Nucleic Acids Res. 28, 1785­1793.

Typ dokumentu

Bibliografia

Identyfikatory

Identyfikator YADDA

bwmeta1.element.agro-article-b5bebc25-4fec-49b7-bbee-d4e8fbf0c3b9
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