-
1
-
-
0031588542
-
Remarkable morphological variability of a common RNA folding motif: The GNRA tetraloop-receptor interaction
-
Abramovitz, D.L. and Pyle, A.M. (1997) Remarkable morphological variability of a common RNA folding motif: the GNRA tetraloop-receptor interaction. J. Mol. Biol., 266, 493-506.
-
(1997)
J. Mol. Biol.
, vol.266
, pp. 493-506
-
-
Abramovitz, D.L.1
Pyle, A.M.2
-
2
-
-
0029670279
-
Catalytic role of 2′-hydroxyl groups within a group II intron active site
-
Abramovitz, D.L., Friedman, R.A. and Pyle, A.M. (1996) Catalytic role of 2′-hydroxyl groups within a group II intron active site. Science, 271, 1410-1413.
-
(1996)
Science
, vol.271
, pp. 1410-1413
-
-
Abramovitz, D.L.1
Friedman, R.A.2
Pyle, A.M.3
-
3
-
-
0027930184
-
A kinetic mechanism for cleavage of pre-tRNA Asp catalyzed by the RNA component of Bacillus subtilis Ribonuclease P
-
Beebe, J.A. and Fierke, C.A. (1994) A kinetic mechanism for cleavage of pre-tRNA Asp catalyzed by the RNA component of Bacillus subtilis Ribonuclease P. Biochemistry, 33, 10294-10304.
-
(1994)
Biochemistry
, vol.33
, pp. 10294-10304
-
-
Beebe, J.A.1
Fierke, C.A.2
-
4
-
-
0032404048
-
Defining the functional groups. core structural features and inter-domain tertiary contacts essential for group II intron self-splicing: A NAIM analysis
-
Boudvillain, M. and Pyle, A.M. (1998) Defining the functional groups. core structural features and inter-domain tertiary contacts essential for group II intron self-splicing: a NAIM analysis. EMBO J., 17, 7091-7104.
-
(1998)
EMBO J.
, vol.17
, pp. 7091-7104
-
-
Boudvillain, M.1
Pyle, A.M.2
-
5
-
-
0029796982
-
RNA tertiary structure mediation by adenosine platforms
-
Cate, J.H., Gooding, A.R., Podell, E., Zhou, K., Golden, B.L., Szewczak, A.A., Kundrot, C.E., Cech, T.R. and Doudna, J.A. (1996) RNA tertiary structure mediation by adenosine platforms. Science, 273, 1696-1699.
-
(1996)
Science
, vol.273
, pp. 1696-1699
-
-
Cate, J.H.1
Gooding, A.R.2
Podell, E.3
Zhou, K.4
Golden, B.L.5
Szewczak, A.A.6
Kundrot, C.E.7
Cech, T.R.8
Doudna, J.A.9
-
6
-
-
0028569768
-
Catalytic site components common to both splicing steps of a group II intron
-
Chanfreau, G. and Jacquier, A. (1994) Catalytic site components common to both splicing steps of a group II intron. Science, 266, 1383-1387.
-
(1994)
Science
, vol.266
, pp. 1383-1387
-
-
Chanfreau, G.1
Jacquier, A.2
-
7
-
-
0030015953
-
An RNA conformational change between the two chemical steps of group II self-splicing
-
Chanfreau, G. and Jacquier, A. (1996) An RNA conformational change between the two chemical steps of group II self-splicing. EMBO J., 15, 3466-3476.
-
(1996)
EMBO J.
, vol.15
, pp. 3466-3476
-
-
Chanfreau, G.1
Jacquier, A.2
-
8
-
-
0024811039
-
Modification interference analysis of reactions using RNA substrates
-
Conway, L. and Wickens, M. (1989) Modification interference analysis of reactions using RNA substrates. Methods Enzymol., 180, 369-379.
-
(1989)
Methods Enzymol.
, vol.180
, pp. 369-379
-
-
Conway, L.1
Wickens, M.2
-
9
-
-
0028921811
-
Frequent use of the same tertiary motif by self-folding RNAs
-
Costa, M. and Michel, F. (1995) Frequent use of the same tertiary motif by self-folding RNAs. EMBO J., 14, 1276-1285.
-
(1995)
EMBO J.
, vol.14
, pp. 1276-1285
-
-
Costa, M.1
Michel, F.2
-
10
-
-
0031552355
-
Multiple tertiary interactions involving domain II of group II self-splicing introns
-
Costa, M., Deme, E., Jacquier, A. and Michel, F. (1997) Multiple tertiary interactions involving domain II of group II self-splicing introns. J. Mol. Biol., 267, 520-536.
-
(1997)
J. Mol. Biol.
, vol.267
, pp. 520-536
-
-
Costa, M.1
Deme, E.2
Jacquier, A.3
Michel, F.4
-
11
-
-
0029258956
-
Self-assembly of a group I intron active site from its component tertiary structural domains
-
Doudna, J.A. and Cech, T.R. (1995) Self-assembly of a group I intron active site from its component tertiary structural domains. RNA, 1, 36-45.
-
(1995)
RNA
, vol.1
, pp. 36-45
-
-
Doudna, J.A.1
Cech, T.R.2
-
12
-
-
0027285186
-
Kinetic analysis of the 5′-splice junction hydrolysis of a Group II intron promoted by Domain 5
-
Franzen, J.S., Zhang, M. and Peebles, C.L. (1993) Kinetic analysis of the 5′-splice junction hydrolysis of a Group II intron promoted by Domain 5. Nucleic Acids Res., 21, 627-634.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 627-634
-
-
Franzen, J.S.1
Zhang, M.2
Peebles, C.L.3
-
13
-
-
0029410699
-
Group II intron ribozymes that cleave DNA and RNA linkages with similar efficiency and lack contacts with substrate 2′-hydroxyl groups
-
Griffin, E.A., Qin, Z.-F., Michels, W.A. and Pyle, A.M. (1995) Group II intron ribozymes that cleave DNA and RNA linkages with similar efficiency and lack contacts with substrate 2′-hydroxyl groups. Chem. Biol., 2, 761-770.
-
(1995)
Chem. Biol.
, vol.2
, pp. 761-770
-
-
Griffin, E.A.1
Qin, Z.-F.2
Michels, W.A.3
Pyle, A.M.4
-
14
-
-
0027491314
-
The phylogenetically predicted base-pairing interaction between α and α′ is required for group II splicing in vitro
-
Harris-Kerr, C.L., Zhang, M. and Peebles, C.L. (1993) The phylogenetically predicted base-pairing interaction between α and α′ is required for group II splicing in vitro. Proc. Natl Acad. Sci. USA, 90, 10658-10662.
-
(1993)
Proc. Natl Acad. Sci. USA
, vol.90
, pp. 10658-10662
-
-
Harris-Kerr, C.L.1
Zhang, M.2
Peebles, C.L.3
-
15
-
-
0021991295
-
Secondary structure of the circular form of the Tetrahymena rRNA intervening sequence: A technique for RNA structure analysis using chemical probes and reverse transcriptase
-
Inouye, T. and Cech, T.R. (1985) Secondary structure of the circular form of the Tetrahymena rRNA intervening sequence: A technique for RNA structure analysis using chemical probes and reverse transcriptase. Proc. Natl Acad. Sci. USA, 82, 648-652.
-
(1985)
Proc. Natl Acad. Sci. USA
, vol.82
, pp. 648-652
-
-
Inouye, T.1
Cech, T.R.2
-
16
-
-
0023643081
-
Multiple exon-binding sites in class II self-splicing introns
-
Jacquier, A. and Michel, F. (1987) Multiple exon-binding sites in class II self-splicing introns. Cell, 50, 17-29.
-
(1987)
Cell
, vol.50
, pp. 17-29
-
-
Jacquier, A.1
Michel, F.2
-
17
-
-
0025344901
-
Base-pairing interactions involving the 5′- And 3′-terminal nucleotides of group II self-splicing introns
-
Jacquier, A. and Michel, F. (1990) Base-pairing interactions involving the 5′-and 3′-terminal nucleotides of group II self-splicing introns. J. Mol. Biol., 213, 437-447.
-
(1990)
J. Mol. Biol.
, vol.213
, pp. 437-447
-
-
Jacquier, A.1
Michel, F.2
-
18
-
-
0024022167
-
Group II Intron Domain 5 facilitates a trans-splicing reaction
-
Jarrell, K.A., Dietrich, R.C. and Perlman, P.S. (1988) Group II Intron Domain 5 facilitates a trans-splicing reaction. Mol. Cell. Biol., 8, 2361-2366.
-
(1988)
Mol. Cell. Biol.
, vol.8
, pp. 2361-2366
-
-
Jarrell, K.A.1
Dietrich, R.C.2
Perlman, P.S.3
-
19
-
-
0343742528
-
Identification of structural elements critical for inter-domain interactions in a group II self-splicing intron
-
Jestin, J.-L., Deme, E. and Jacquier, A. (1997) Identification of structural elements critical for inter-domain interactions in a group II self-splicing intron. EMBO J., 16, 2945-2954.
-
(1997)
EMBO J.
, vol.16
, pp. 2945-2954
-
-
Jestin, J.-L.1
Deme, E.2
Jacquier, A.3
-
20
-
-
0026695012
-
Group II introns deleted for multiple substructures retain self-splicing activity
-
Koch, J.L., Boulanger, S.C., Dib-Hajj, S., Hebbar, S.K. and Perlman, P.S. (1992) Group II introns deleted for multiple substructures retain self-splicing activity. Mol. Cell. Biol., 12, 1950-1958.
-
(1992)
Mol. Cell. Biol.
, vol.12
, pp. 1950-1958
-
-
Koch, J.L.1
Boulanger, S.C.2
Dib-Hajj, S.3
Hebbar, S.K.4
Perlman, P.S.5
-
21
-
-
0031991610
-
Ribozyme catalysis from the major groove of group II intron domain 5
-
Konforti, B.B., Abramovitz, D.L., Duarte, C.M., Karpeisky, A., Beigelman, L. and Pyle, A.M. (1998) Ribozyme catalysis from the major groove of group II intron domain 5. Mol. Cell, 1, 433-141.
-
(1998)
Mol. Cell
, vol.1
, pp. 433-1141
-
-
Konforti, B.B.1
Abramovitz, D.L.2
Duarte, C.M.3
Karpeisky, A.4
Beigelman, L.5
Pyle, A.M.6
-
22
-
-
0025888264
-
Efficient site-directed mutagenesis using uracil-containing DNA
-
Kunkel, T.A., Bebenek, K. and McClary, J. (1991) Efficient site-directed mutagenesis using uracil-containing DNA. Methods Enzymol., 204, 125-139.
-
(1991)
Methods Enzymol.
, vol.204
, pp. 125-139
-
-
Kunkel, T.A.1
Bebenek, K.2
McClary, J.3
-
23
-
-
0025165413
-
Structural analysis of a group II intron by chemical modifications and minimal energy calculations
-
Kwakman, J.H., Konings, D.A., Hogeweg, P., Pel, H.J. and Grivell, L.A. (1990) Structural analysis of a group II intron by chemical modifications and minimal energy calculations. J. Biomol. Struct. Dyn., 8, 413-430.
-
(1990)
J. Biomol. Struct. Dyn.
, vol.8
, pp. 413-430
-
-
Kwakman, J.H.1
Konings, D.A.2
Hogeweg, P.3
Pel, H.J.4
Grivell, L.A.5
-
24
-
-
0029001288
-
Bent helix formation between RNA hairpins with complementary loops
-
Marino, J.P., Gregorian, R.S., Csankovszki, G. and Crothers, D.M. (1995) Bent helix formation between RNA hairpins with complementary loops. Science, 268, 1448-1454.
-
(1995)
Science
, vol.268
, pp. 1448-1454
-
-
Marino, J.P.1
Gregorian, R.S.2
Csankovszki, G.3
Crothers, D.M.4
-
25
-
-
0032546728
-
Derivation of the three-dimensional architecture of bacterial Ribonuclease P RNAs from comparative sequence analysis
-
Massire, C., Jaeger, L. and Westhof, E. (1998) Derivation of the three-dimensional architecture of bacterial Ribonuclease P RNAs from comparative sequence analysis. J. Mol. Biol., 279, 773-793.
-
(1998)
J. Mol. Biol.
, vol.279
, pp. 773-793
-
-
Massire, C.1
Jaeger, L.2
Westhof, E.3
-
26
-
-
0029066770
-
Structure and activities of group II introns
-
Michel, F. and Ferat, J.-L. (1995) Structure and activities of group II introns. Annu. Rev. Biochem., 64, 435-461.
-
(1995)
Annu. Rev. Biochem.
, vol.64
, pp. 435-461
-
-
Michel, F.1
Ferat, J.-L.2
-
27
-
-
0024428420
-
Comparative and functional anatomy of group II catalytic introns - A review
-
Michel, F., Umesono, K. and Ozeki, H. (1989) Comparative and functional anatomy of group II catalytic introns - a review. Gene, 82, 5-30.
-
(1989)
Gene
, vol.82
, pp. 5-30
-
-
Michel, F.1
Umesono, K.2
Ozeki, H.3
-
28
-
-
0028904152
-
Conversion of a group II intron into a new multiple-turnover ribozyme that selectively cleaves oligonucleotides: Elucidation of reaction mechanism and structure/ function relationships
-
Michels, W.J. and Pyle, A.M. (1995) Conversion of a group II intron into a new multiple-turnover ribozyme that selectively cleaves oligonucleotides: elucidation of reaction mechanism and structure/ function relationships. Biochemistry, 34, 2965-2977.
-
(1995)
Biochemistry
, vol.34
, pp. 2965-2977
-
-
Michels, W.J.1
Pyle, A.M.2
-
29
-
-
0022470564
-
Rapid chemical probing of conformation in 16S ribosomal subunits using primer extension
-
Moazed, D., Stern, S. and Noller, H.F. (1986) Rapid chemical probing of conformation in 16S ribosomal subunits using primer extension. J. Mol. Biol., 187, 399-416.
-
(1986)
J. Mol. Biol.
, vol.187
, pp. 399-416
-
-
Moazed, D.1
Stern, S.2
Noller, H.F.3
-
30
-
-
0027173193
-
An independently folding domain of RNA tertiary structure within the Tetrahymena ribozyme
-
Murphy, F.L. and Cech, T.R. (1993) An independently folding domain of RNA tertiary structure within the Tetrahymena ribozyme. Biochemistry, 32, 5291-5300.
-
(1993)
Biochemistry
, vol.32
, pp. 5291-5300
-
-
Murphy, F.L.1
Cech, T.R.2
-
31
-
-
0028990228
-
Identification of a catalytically critical trinucleotide in Domain 5 of a group II intron
-
Peebles, C.L., Zhang, M., Perlman, P.S. and Franzen, J.F. (1995) Identification of a catalytically critical trinucleotide in Domain 5 of a group II intron. Proc. Natl Acad. Sci. USA, 92, 4422-4426.
-
(1995)
Proc. Natl Acad. Sci. USA
, vol.92
, pp. 4422-4426
-
-
Peebles, C.L.1
Zhang, M.2
Perlman, P.S.3
Franzen, J.F.4
-
32
-
-
0029382528
-
A UV-induced Mg2+-dependent cross-link traps an active form of Domain 3 of a self-splicing group II intron
-
Podar, M., Dib-Hajj, S. and Perlman, P.S. (1995a) A UV-induced Mg2+-dependent cross-link traps an active form of Domain 3 of a self-splicing group II intron. RNA, 1, 828-840.
-
(1995)
RNA
, vol.1
, pp. 828-840
-
-
Podar, M.1
Dib-Hajj, S.2
Perlman, P.S.3
-
33
-
-
0029061712
-
Stereochemical selectivity of group II intron splicing, reverse-splicing and hydrolysis reactions
-
Podar, M., Perlman, P.S. and Padgett, R.A. (1995b) Stereochemical selectivity of group II intron splicing, reverse-splicing and hydrolysis reactions. Mol. Cell. Biol., 15, 4466-4478.
-
(1995)
Mol. Cell. Biol.
, vol.15
, pp. 4466-4478
-
-
Podar, M.1
Perlman, P.S.2
Padgett, R.A.3
-
34
-
-
0031939815
-
Domain 5 binds near a highly-conserved dinucleotide in the joiner linking domains 2 and 3 of a group II intron
-
Podar, M., Zhou, J., Zhang, M., Franzen, J.S., Perlman, P.S. and Peebles, C.L. (1998) Domain 5 binds near a highly-conserved dinucleotide in the joiner linking domains 2 and 3 of a group II intron. RNA, 4, 151-166.
-
(1998)
RNA
, vol.4
, pp. 151-166
-
-
Podar, M.1
Zhou, J.2
Zhang, M.3
Franzen, J.S.4
Perlman, P.S.5
Peebles, C.L.6
-
35
-
-
0002319075
-
Catalytic reaction mechanisms and structural features of Group II intron ribozymes
-
Eckstein, F. and Lilley, D.M.J. (eds). Springer Verlag, New York
-
Pyle, A.M. (1996) Catalytic reaction mechanisms and structural features of Group II intron ribozymes. In Eckstein, F. and Lilley, D.M.J. (eds), Nucleic Acids and Molecular Biology. Vol. 10. Springer Verlag, New York, pp. 75-107.
-
(1996)
Nucleic Acids and Molecular Biology
, vol.10
, pp. 75-107
-
-
Pyle, A.M.1
-
36
-
-
0028351893
-
Building a kinetic framework for group II intron ribozyme activity: Quantitation of interdomain binding and reaction rate
-
Pyle, A.M. and Green, J.B. (1994) Building a kinetic framework for group II intron ribozyme activity: quantitation of interdomain binding and reaction rate. Biochemistry, 33, 2716-2725.
-
(1994)
Biochemistry
, vol.33
, pp. 2716-2725
-
-
Pyle, A.M.1
Green, J.B.2
-
37
-
-
0026729278
-
Ribozyme substrate binding site in the catalytic core of the Tetrahymena ribozyme
-
Pyle, A.M., Murphy, F.L. and Cech, T.R. (1992) Ribozyme substrate binding site in the catalytic core of the Tetrahymena ribozyme. Nature, 358, 123-128.
-
(1992)
Nature
, vol.358
, pp. 123-128
-
-
Pyle, A.M.1
Murphy, F.L.2
Cech, T.R.3
-
38
-
-
0030936233
-
Stopped-flow fluorescence spectrocopy reveals that domain 1 of a group II intron is an independent folding unit
-
Qin, P.Z.F. and Pyle, A.M. (1997) Stopped-flow fluorescence spectrocopy reveals that domain 1 of a group II intron is an independent folding unit Biochemistry, 36, 4718-4730.
-
(1997)
Biochemistry
, vol.36
, pp. 4718-4730
-
-
Qin, P.Z.F.1
Pyle, A.M.2
-
39
-
-
0032103821
-
The architectural organization and mechanistic function of group II intron structural elements
-
Qin, P.Z. and Pyle, A.M. (1998) The architectural organization and mechanistic function of group II intron structural elements. Curr. Opin. Struct. Biol., 8, 301-308.
-
(1998)
Curr. Opin. Struct. Biol.
, vol.8
, pp. 301-308
-
-
Qin, P.Z.1
Pyle, A.M.2
-
40
-
-
0030898510
-
A general purpose RNA-cleaving DNA enzyme
-
Santoro, S.W. and Joyce, G.F. (1997) A general purpose RNA-cleaving DNA enzyme. Proc. Natl Acad. Sci. USA, 94, 4262-4266.
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 4262-4266
-
-
Santoro, S.W.1
Joyce, G.F.2
-
41
-
-
0030965811
-
Defining the chemical groups essential for Tetrahymena aroup I intron function by nucleotide analog interference mapping (NAIM)
-
Strobel, S.A. and Shetty, K. (1997) Defining the chemical groups essential for Tetrahymena aroup I intron function by nucleotide analog interference mapping (NAIM). 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
-
42
-
-
0031984645
-
Complementary sets of noncanonical base pairs mediate RNA helix packing in the group I intron active site
-
Strobel, S.A., Ortoleva-Donnelly, L., Ryder, S.P., Cate, J.H. and Moncoeur, E. (1998) Complementary sets of noncanonical base pairs mediate RNA helix packing in the group I intron active site. Nature Struct. Biol., 5, 60-65.
-
(1998)
Nature Struct. Biol.
, vol.5
, pp. 60-65
-
-
Strobel, S.A.1
Ortoleva-Donnelly, L.2
Ryder, S.P.3
Cate, J.H.4
Moncoeur, E.5
-
43
-
-
0026409808
-
Restoration of the sell-splicing activity of a defective group II intron by a small trans-acting RNA
-
Suchy, M. and Schmelzer, C. (1991) Restoration of the sell-splicing activity of a defective group II intron by a small trans-acting RNA. J. Mol. Biol., 222, 179-187.
-
(1991)
J. Mol. Biol.
, vol.222
, pp. 179-187
-
-
Suchy, M.1
Schmelzer, C.2
-
44
-
-
0032539968
-
The sequence-specificity of a group II intron ribozyme: Multiple mechanisms for promoting unusually high discrimination against mismatched targets
-
Xiang, Q., Qin, P.Z., Michels, W.J., Freeland, K. and Pyle, A.M. (1998) The sequence-specificity of a group II intron ribozyme: Multiple mechanisms for promoting unusually high discrimination against mismatched targets. Biochemistry, 37, 3839-3849.
-
(1998)
Biochemistry
, vol.37
, pp. 3839-3849
-
-
Xiang, Q.1
Qin, P.Z.2
Michels, W.J.3
Freeland, K.4
Pyle, A.M.5
-
45
-
-
0029312520
-
Transfer RNA aminoacylation: Identification of a critical ribose 2′-hydroxyl-base interaction
-
Yap, L.-P. and Musier-Forsyth, K. (1995) Transfer RNA aminoacylation: Identification of a critical ribose 2′-hydroxyl-base interaction. RNA, 1, 418-124.
-
(1995)
RNA
, vol.1
, pp. 418-1124
-
-
Yap, L.-P.1
Musier-Forsyth, K.2
|