-
2
-
-
0345255939
-
Ribozyme-based gene-inactivation systems require a fine comprehension of their substrates specificities; the case of delta ribozyme
-
Bergeron,L.J., Ouellet,J. and Perreault,J.P. (2003) Ribozyme-based gene-inactivation systems require a fine comprehension of their substrates specificities; the case of delta ribozyme. Curr. Med. Chem., 10, 2589-2597.
-
(2003)
Curr. Med. Chem
, vol.10
, pp. 2589-2597
-
-
Bergeron, L.J.1
Ouellet, J.2
Perreault, J.P.3
-
3
-
-
0032497521
-
Crystal structure of a hepatitis delta virus ribozyme
-
FerréD' Amaré,A.R., Zhou,K. and Doudna,J.A. (1998) Crystal structure of a hepatitis delta virus ribozyme. Nature, 395, 567-574.
-
(1998)
Nature
, vol.395
, pp. 567-574
-
-
FerréD' Amaré, A.R.1
Zhou, K.2
Doudna, J.A.3
-
4
-
-
2442641641
-
A conformational switch controls hepatitis delta virus ribozyme catalysis
-
Ke,A., Zhou,K., Ding,F., Cate,J. and Doudna,J.A. (2004) A conformational switch controls hepatitis delta virus ribozyme catalysis. Nature, 429, 201-205.
-
(2004)
Nature
, vol.429
, pp. 201-205
-
-
Ke, A.1
Zhou, K.2
Ding, F.3
Cate, J.4
Doudna, J.A.5
-
5
-
-
0033053643
-
A nested double pseudoknot is required for self-cleavage activity of both the genomic and antigenomic hepatitis delta virus ribozymes
-
Wadkins,T.S., Perrotta,A.T., FerréD'Amaré,A.R., Doudna,J.A. and 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, 6, 720-727.
-
(1999)
RNA
, vol.6
, pp. 720-727
-
-
Wadkins, T.S.1
Perrotta, A.T.2
FerréD'Amaré, A.R.3
Doudna, J.A.4
Been, M.D.5
-
6
-
-
0034651676
-
Requirement of the canonical base pairing in the short pseudoknot structure of genomic hepatitis delta virus ribozyme
-
Nishikawa,F. and Nishikawa,S. (2000) Requirement of the canonical base pairing in the short pseudoknot structure of genomic hepatitis delta virus ribozyme. Nucleic Acids Res., 28, 925-931.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 925-931
-
-
Nishikawa, F.1
Nishikawa, S.2
-
7
-
-
0038476169
-
Formation of the P1.1 pseudoknot is critical for both the cleavage activity and substrate specificity of an antigenomic trans-acting hepatitis delta ribozyme
-
Deschênes,P., Ouellet,J., Perreault,J. and Perreault,J.P. (2003) Formation of the P1.1 pseudoknot is critical for both the cleavage activity and substrate specificity of an antigenomic trans-acting hepatitis delta ribozyme. Nucleic Acids Res., 31, 2087-2096.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 2087-2096
-
-
Deschênes, P.1
Ouellet, J.2
Perreault, J.3
Perreault, J.P.4
-
8
-
-
0034643251
-
The kinetic and magnesium requirements for the folding of antigenomic δ ribozymes
-
Ananvoranich,S. and Perreault,J.P. (2000) The kinetic and magnesium requirements for the folding of antigenomic δ ribozymes. Biochem. Biophys. Res. Comm., 270, 600-607.
-
(2000)
Biochem. Biophys. Res. Comm
, vol.270
, pp. 600-607
-
-
Ananvoranich, S.1
Perreault, J.P.2
-
9
-
-
0347763707
-
Catalytic roles for proton transfer and protonation in ribozymes
-
Bevilacqua,P.C., Brown,T.S., Nakano,S. and Yajima,R. (2004) Catalytic roles for proton transfer and protonation in ribozymes. Biopolymers 73, 90-109.
-
(2004)
Biopolymers
, vol.73
, pp. 90-109
-
-
Bevilacqua, P.C.1
Brown, T.S.2
Nakano, S.3
Yajima, R.4
-
10
-
-
24644454458
-
General acid catalysis by the hepatitis delta virus ribozyme
-
Das,S.R. and Piccirilli,J.A. (2005) General acid catalysis by the hepatitis delta virus ribozyme. Nat. Chem. Biol., 1, 45-52.
-
(2005)
Nat. Chem. Biol
, vol.1
, pp. 45-52
-
-
Das, S.R.1
Piccirilli, J.A.2
-
11
-
-
34247500246
-
Impact of an extruded nucleotide on cleavage activity and dynamic catalytic core conformation of the HDV ribozyme
-
Sefcikova,J., Krasovska,M.V., Spackova,N., Sponer,J. and Walter,N.G. (2007) Impact of an extruded nucleotide on cleavage activity and dynamic catalytic core conformation of the HDV ribozyme. Biopolymers., 85, 392-406.
-
(2007)
Biopolymers
, vol.85
, pp. 392-406
-
-
Sefcikova, J.1
Krasovska, M.V.2
Spackova, N.3
Sponer, J.4
Walter, N.G.5
-
12
-
-
32644448356
-
Unbiased in vitro selection reveals the unique character of the self-cleaving antigenomic HDV RNA sequence
-
Nehdi,A. and Perreault,J.P. (2006) Unbiased in vitro selection reveals the unique character of the self-cleaving antigenomic HDV RNA sequence. Nucleic Acids Res., 34, 584-592.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 584-592
-
-
Nehdi, A.1
Perreault, J.P.2
-
13
-
-
0027198025
-
Mutagenesis analysis of a hepatitis delta virus genomic ribozyme
-
Wu,H.N., Lee,J.Y., Huang,H.W., Huang,Y.S. and Hsueh,T.G. (1993) Mutagenesis analysis of a hepatitis delta virus genomic ribozyme. Nucleic Acids Res., 21, 4193-4199.
-
(1993)
Nucleic Acids Res
, vol.21
, pp. 4193-4199
-
-
Wu, H.N.1
Lee, J.Y.2
Huang, H.W.3
Huang, Y.S.4
Hsueh, T.G.5
-
14
-
-
0033178245
-
Presence of a coordinated metal ion in a trans-acting antigenomic delta ribozyme
-
Lafontaine,D.A., Ananvoranich,S. and Perreault,J.P. (1999) Presence of a coordinated metal ion in a trans-acting antigenomic delta ribozyme. Nucleic Acids Res., 27, 3236-3243.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 3236-3243
-
-
Lafontaine, D.A.1
Ananvoranich, S.2
Perreault, J.P.3
-
15
-
-
0029438470
-
Optimal self-cleavage activity of the hepatitis delta virus RNA is dependent on a homopurine base pair in the ribozyme core
-
Been,M.D. and Perrotta,A.T. (1995) Optimal self-cleavage activity of the hepatitis delta virus RNA is dependent on a homopurine base pair in the ribozyme core. RNA, 1, 1061-1070.
-
(1995)
RNA
, vol.1
, pp. 1061-1070
-
-
Been, M.D.1
Perrotta, A.T.2
-
16
-
-
0032831634
-
Relationship between inter-nucleotide linkage geometry and the stability of RNA
-
Soukup,G.A. and Breaker,R.R. (1999) Relationship between inter-nucleotide linkage geometry and the stability of RNA. RNA, 5, 1308-1325.
-
(1999)
RNA
, vol.5
, pp. 1308-1325
-
-
Soukup, G.A.1
Breaker, R.R.2
-
17
-
-
0036753365
-
Genetic control by a metabolite binding mRNA
-
Nahvi,A., Sudarsan,N., Ebert,M.S., Zou,X., Brown,K.L. and Breaker,R.R. (2002) Genetic control by a metabolite binding mRNA. Chem. Biol., 9, 1043-1049.
-
(2002)
Chem. Biol
, vol.9
, pp. 1043-1049
-
-
Nahvi, A.1
Sudarsan, N.2
Ebert, M.S.3
Zou, X.4
Brown, K.L.5
Breaker, R.R.6
-
18
-
-
0032557647
-
Substrate specificity of delta ribozyme cleavage
-
Ananvoranich,S. and Perreault,J.P. (1998) Substrate specificity of delta ribozyme cleavage. J. Biol. Chem., 273, 13182-13188.
-
(1998)
J. Biol. Chem
, vol.273
, pp. 13182-13188
-
-
Ananvoranich, S.1
Perreault, J.P.2
-
19
-
-
33845909854
-
Examination of the folding pathway of the antigenomic hepatitis delta virus ribozyme reveals key interactions of the L3 loop
-
Reymond,C., Ouellet,J., Bisaillon,M. and Perreault,J.P. (2007) Examination of the folding pathway of the antigenomic hepatitis delta virus ribozyme reveals key interactions of the L3 loop. RNA, 13 44-54.
-
(2007)
RNA
, vol.13
, pp. 44-54
-
-
Reymond, C.1
Ouellet, J.2
Bisaillon, M.3
Perreault, J.P.4
-
20
-
-
3042667859
-
Cross-linking experiments reveal the presence of novel structural features between a hepatitis delta virus ribozyme and its substrate
-
Ouellet,J. and Perreault,J.P. (2004) Cross-linking experiments reveal the presence of novel structural features between a hepatitis delta virus ribozyme and its substrate. RNA, 10, 1059-1072.
-
(2004)
RNA
, vol.10
, pp. 1059-1072
-
-
Ouellet, J.1
Perreault, J.P.2
-
21
-
-
3342915806
-
Terbium-mediated footprinting probes a catalytic conformational switch in the antigenomic hepatitis delta virus ribozyme
-
Harris,D.A., Tinsley,R.A. and Walter,N.G. (2004) Terbium-mediated footprinting probes a catalytic conformational switch in the antigenomic hepatitis delta virus ribozyme. J. Mol. Biol., 341, 389-403.
-
(2004)
J. Mol. Biol
, vol.341
, pp. 389-403
-
-
Harris, D.A.1
Tinsley, R.A.2
Walter, N.G.3
-
22
-
-
0030803589
-
Self-cleaving ribozymes of hepatitis delta virus RNA
-
Been,M.D. and Wickham,G.S. (1997) Self-cleaving ribozymes of hepatitis delta virus RNA. Eur. J. Biochem., 247, 741-753.
-
(1997)
Eur. J. Biochem
, vol.247
, pp. 741-753
-
-
Been, M.D.1
Wickham, G.S.2
-
23
-
-
0037044320
-
Local conformational changes in the catalytic core of the trans-acting hepatitis delta virus ribozyme accompany catalysis
-
Harris,D.A., Rueda,D. and Walters,N.G. (2002) Local conformational changes in the catalytic core of the trans-acting hepatitis delta virus ribozyme accompany catalysis. Biochemistry, 41, 12051-12061.
-
(2002)
Biochemistry
, vol.41
, pp. 12051-12061
-
-
Harris, D.A.1
Rueda, D.2
Walters, N.G.3
-
24
-
-
0037154091
-
Reaction pathway of the trans-acting hepatitis delta virus ribozyme: A conformational change accompanies catalysis
-
Pereira,M.J.B., Harris,D.A., Rueda,D. and Walters,N.G. (2002) Reaction pathway of the trans-acting hepatitis delta virus ribozyme: A conformational change accompanies catalysis. Biochemistry, 41 730-740.
-
(2002)
Biochemistry
, vol.41
, pp. 730-740
-
-
Pereira, M.J.B.1
Harris, D.A.2
Rueda, D.3
Walters, N.G.4
-
25
-
-
0036464542
-
Imino proton NMR analysis of HDV ribozyme: Nested double pseudoknot structure and Mg2+ ion-binding site close to the catalytic core in solution
-
Tanaka,Y., Hori,T., Tagaya,M., Sakamoto,T., Kurihara,M. and Uesugi,S. (2002) Imino proton NMR analysis of HDV ribozyme: Nested double pseudoknot structure and Mg2+ ion-binding site close to the catalytic core in solution. Nucleic Acids Res., 30, 766-774.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 766-774
-
-
Tanaka, Y.1
Hori, T.2
Tagaya, M.3
Sakamoto, T.4
Kurihara, M.5
Uesugi, S.6
-
26
-
-
0037135546
-
Kinetic and binding analysis of the catalytic involvement of ribose moieties of a trans-acting delta ribozyme
-
Fiola,K. and Perreault,J.P. (2002) Kinetic and binding analysis of the catalytic involvement of ribose moieties of a trans-acting delta ribozyme. J. Biol. Chem., 277, 26508-26516.
-
(2002)
J. Biol. Chem
, vol.277
, pp. 26508-26516
-
-
Fiola, K.1
Perreault, J.P.2
-
27
-
-
0034816752
-
Kinetic analysis of bimolecular hepatitis delta virus ribozyme
-
Ananvoranich,S., Fiola,K., Ouellet,J., Deschênes,P. and Perreault,J.P. (2001) Kinetic analysis of bimolecular hepatitis delta virus ribozyme. Methods Enzymol., 341, 553-566.
-
(2001)
Methods Enzymol
, vol.341
, pp. 553-566
-
-
Ananvoranich, S.1
Fiola, K.2
Ouellet, J.3
Deschênes, P.4
Perreault, J.P.5
-
28
-
-
33644879170
-
Antigenomic delta ribozyme variants with mutations in the catalytic core obtained by the in vitro selection method
-
Legiewicz,M., Wichlacz,A., Brzezicha,B. and Ciesiolka,J. (2006) Antigenomic delta ribozyme variants with mutations in the catalytic core obtained by the in vitro selection method. Nucleic Acids Res., 34, 1270-1280.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 1270-1280
-
-
Legiewicz, M.1
Wichlacz, A.2
Brzezicha, B.3
Ciesiolka, J.4
-
29
-
-
0025882069
-
A pseudoknot-like structure required for efficient self-cleavage of hepatitis delta virus RNA
-
Perrotta,A.T. and Been,M.D. (1991) A pseudoknot-like structure required for efficient self-cleavage of hepatitis delta virus RNA. Nature, 350, 434-436.
-
(1991)
Nature
, vol.350
, pp. 434-436
-
-
Perrotta, A.T.1
Been, M.D.2
-
30
-
-
0029758745
-
The importance of the helix 2 region for the cis-cleaving and trans-cleaving activities of hepatitis delta virus ribozymes
-
Lee,C.B., Lai,Y.C., Ping,Y.H., Huang,Z.S., Lin,J.Y. and Wu,H.N. (1996) The importance of the helix 2 region for the cis-cleaving and trans-cleaving activities of hepatitis delta virus ribozymes. Biochemistry, 35, 12303-12312.
-
(1996)
Biochemistry
, vol.35
, pp. 12303-12312
-
-
Lee, C.B.1
Lai, Y.C.2
Ping, Y.H.3
Huang, Z.S.4
Lin, J.Y.5
Wu, H.N.6
-
31
-
-
0029964591
-
Core sequences and a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage
-
Perrotta,A.T. and Been,M.D. (1996) Core sequences and a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage. Nucleic Acids Res., 24, 1314-1321.
-
(1996)
Nucleic Acids Res
, vol.24
, pp. 1314-1321
-
-
Perrotta, A.T.1
Been, M.D.2
-
32
-
-
0029781027
-
Hepatitis delta virus ribozymes fold to generate a solvent inaccessible core with essential nucleotides near the cleavage-site phosphate
-
Rosenstein,S.R. and Been,M.D. (1996) Hepatitis delta virus ribozymes fold to generate a solvent inaccessible core with essential nucleotides near the cleavage-site phosphate. Biochemistry, 35, 11403-11413.
-
(1996)
Biochemistry
, vol.35
, pp. 11403-11413
-
-
Rosenstein, S.R.1
Been, M.D.2
-
33
-
-
33749034196
-
A genomewide search for ribozymes reveals an HDV-like sequence in the human CPEB3 gene
-
Salehi-Ashtiani,K., Luptak,A., Litovchick,A. and Szostak,J.W. (2006) A genomewide search for ribozymes reveals an HDV-like sequence in the human CPEB3 gene. Science, 313, 1788-1792.
-
(2006)
Science
, vol.313
, pp. 1788-1792
-
-
Salehi-Ashtiani, K.1
Luptak, A.2
Litovchick, A.3
Szostak, J.W.4
-
34
-
-
0035997396
-
Catalytic strategies of the hepatitis delta virus ribozymes
-
Shih,I.H. and Been,M.D. (2002) Catalytic strategies of the hepatitis delta virus ribozymes. Annu. Rev. Biochem., 71, 887-917.
-
(2002)
Annu. Rev. Biochem
, vol.71
, pp. 887-917
-
-
Shih, I.H.1
Been, M.D.2
|