-
1
-
-
0019856947
-
In vitro splicing of the ribosomal RNA precursor of tetrahymena: Involvement of a guanosine nucleotide in the excision of the intervening sequence
-
T.R. Cech, A.J. Zaug, and P.J. Grabowski In vitro splicing of the ribosomal RNA precursor of tetrahymena: involvement of a guanosine nucleotide in the excision of the intervening sequence Cell 27 1981 487 496
-
(1981)
Cell
, vol.27
, pp. 487-496
-
-
Cech, T.R.1
Zaug, A.J.2
Grabowski, P.J.3
-
2
-
-
0021013526
-
The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
-
C. Guerrier-Takada, K. Gardiner, T. Marsh, N. Pace, and S. Altman The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme Cell 35 1983 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
-
3
-
-
0022975535
-
The tetrahymena ribozyme acts like an RNA restriction endonuclease
-
A.J. Zaug, M.D. Been, and T.R. Cech The tetrahymena ribozyme acts like an RNA restriction endonuclease Nature 324 1986 429 433
-
(1986)
Nature
, vol.324
, pp. 429-433
-
-
Zaug, A.J.1
Been, M.D.2
Cech, T.R.3
-
4
-
-
0037062978
-
The antiquity of RNA-based evolution
-
G.F. Joyce The antiquity of RNA-based evolution Nature 418 2002 214 221
-
(2002)
Nature
, vol.418
, pp. 214-221
-
-
Joyce, G.F.1
-
5
-
-
5644303570
-
Ribozyme mechanisms
-
Y. Takagi, Y. Ikeda, and K. Taira Ribozyme mechanisms Top Curr Chem 232 2004 213 251 A highly useful account on the present state of the mechanistic understanding of ribozyme action.
-
(2004)
Top Curr Chem
, vol.232
, pp. 213-251
-
-
Takagi, Y.1
Ikeda, Y.2
Taira, K.3
-
6
-
-
0002920388
-
Pseudo-rotation in the hydrolysis of phosphate esters
-
F.H. Westheimer Pseudo-rotation in the hydrolysis of phosphate esters Acc Chem Res 1 1968 70 78
-
(1968)
Acc Chem Res
, vol.1
, pp. 70-78
-
-
Westheimer, F.H.1
-
7
-
-
0001055719
-
Kinetics and mechanisms for the cleavage and isomerization of the phosphodiester bonds of RNA by Brönsted acids and bases
-
M. Oivanen, S. Kuusela, and H. Lönnberg Kinetics and mechanisms for the cleavage and isomerization of the phosphodiester bonds of RNA by Brönsted acids and bases Chem Rev 98 1998 961 990
-
(1998)
Chem Rev
, vol.98
, pp. 961-990
-
-
Oivanen, M.1
Kuusela, S.2
Lönnberg, H.3
-
8
-
-
4344672759
-
Compelling evidence for a stepwise mechanism of the alkaline cyclization of uridine 3′-phosphate esters
-
H. Lönnberg, R. Strömberg, and A. Williams Compelling evidence for a stepwise mechanism of the alkaline cyclization of uridine 3′-phosphate esters Org Biomol Chem 2 2004 2165 2167
-
(2004)
Org Biomol Chem
, vol.2
, pp. 2165-2167
-
-
Lönnberg, H.1
Strömberg, R.2
Williams, A.3
-
9
-
-
0037042277
-
a in phosphoranes: Implications for phosphate ester hydrolysis
-
a in phosphoranes: implications for phosphate ester hydrolysis J Am Chem Soc 124 2002 5010 5018 Insightful discussion on protolytic equilibria of oxyphosphoranes, a subject of central importance for mechanistic interpretations of experimental data.
-
(2002)
J Am Chem Soc
, vol.124
, pp. 5010-5018
-
-
Lopez, X.1
Schaefer, M.2
Dejaegere, A.3
Karplus, M.4
-
10
-
-
15944404979
-
Pseudorotation barriers of biological oxyphosphoranes: A challenge for simulations of ribozyme catalysis
-
C.S. Lopez, O.N. Faza, A.R. de Lera, and D.M. York Pseudorotation barriers of biological oxyphosphoranes: a challenge for simulations of ribozyme catalysis Chemistry 11 2005 2081 2093
-
(2005)
Chemistry
, vol.11
, pp. 2081-2093
-
-
Lopez, C.S.1
Faza, O.N.2
De Lera, A.R.3
York, D.M.4
-
11
-
-
0035965685
-
Solvent effects on the reaction coordinate of the hydrolysis of phosphates and sulfates: Application of Hammond and anti-Hammond postulates to understand hydrolysis in solution
-
X. Lopez, A. Dejaegere, and M. Karplus Solvent effects on the reaction coordinate of the hydrolysis of phosphates and sulfates: application of Hammond and anti-Hammond postulates to understand hydrolysis in solution J Am Chem Soc 123 2001 11755 11763
-
(2001)
J Am Chem Soc
, vol.123
, pp. 11755-11763
-
-
Lopez, X.1
Dejaegere, A.2
Karplus, M.3
-
12
-
-
0000806492
-
Hydrolytic stability of helical RNA: A selective advantage for the natural 3′,5′-bond
-
D.A. Usher, and A.H. McHale Hydrolytic stability of helical RNA: a selective advantage for the natural 3′,5′-bond Proc Natl Acad Sci USA 73 1976 1149 1153
-
(1976)
Proc Natl Acad Sci USA
, vol.73
, pp. 1149-1153
-
-
Usher, D.A.1
McHale, A.H.2
-
13
-
-
0026672376
-
Nonenzymatic hydrolysis of oligoribonucleotides
-
R. Kierzek Nonenzymatic hydrolysis of oligoribonucleotides Nucleic Acids Res 20 1992 5079 5084
-
(1992)
Nucleic Acids Res
, vol.20
, pp. 5079-5084
-
-
Kierzek, R.1
-
14
-
-
0033575087
-
Kinetics of RNA degradation by specific base catalysis of transesterification involving the 2′-hydroxyl group
-
Y. Li, and R.R. Breaker Kinetics of RNA degradation by specific base catalysis of transesterification involving the 2′-hydroxyl group J Am Chem Soc 121 1999 5364 5372
-
(1999)
J Am Chem Soc
, vol.121
, pp. 5364-5372
-
-
Li, Y.1
Breaker, R.R.2
-
15
-
-
0037079676
-
The reactivity of phosphodiester bonds within linear single-stranded oligoribonucleotides is strongly dependent on the base sequence
-
U. Kaukinen, S. Lyytikäinen, S. Mikkola, and H. Lönnberg The reactivity of phosphodiester bonds within linear single-stranded oligoribonucleotides is strongly dependent on the base sequence Nucleic Acids Res 30 2002 468 474
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 468-474
-
-
Kaukinen, U.1
Lyytikäinen, S.2
Mikkola, S.3
Lönnberg, H.4
-
16
-
-
0141730415
-
The base sequence dependent flexibility of linear single-stranded oligoribonucleotides correlates with the reactivity of the phosphodiester bond
-
U. Kaukinen, T. Venäläinen, H. Lönnberg, and M. Peräkylä The base sequence dependent flexibility of linear single-stranded oligoribonucleotides correlates with the reactivity of the phosphodiester bond Org Biomol Chem 1 2003 2439 2447
-
(2003)
Org Biomol Chem
, vol.1
, pp. 2439-2447
-
-
Kaukinen, U.1
Venäläinen, T.2
Lönnberg, H.3
Peräkylä, M.4
-
17
-
-
1642502973
-
Stabilization of the transition state of phosphodiester bond cleavage within linear single-stranded oligoribonucleotides
-
U. Kaukinen, H. Lönnberg, and M. Peräkylä Stabilization of the transition state of phosphodiester bond cleavage within linear single-stranded oligoribonucleotides Org Biomol Chem 2 2004 66 73
-
(2004)
Org Biomol Chem
, vol.2
, pp. 66-73
-
-
Kaukinen, U.1
Lönnberg, H.2
Peräkylä, M.3
-
18
-
-
0033450956
-
Hydrolysis of phosphodiester bonds within RNA hairpin loops in buffer solutions: The effect of secondary structure on the inherent reactivity of RNA phosphodiester bonds
-
I. Zagorowska, S. Mikkola, and H. Lönnberg Hydrolysis of phosphodiester bonds within RNA hairpin loops in buffer solutions: the effect of secondary structure on the inherent reactivity of RNA phosphodiester bonds Helv Chim Acta 82 1999 2105 2110
-
(1999)
Helv Chim Acta
, vol.82
, pp. 2105-2110
-
-
Zagorowska, I.1
Mikkola, S.2
Lönnberg, H.3
-
19
-
-
0034743058
-
The cleavage of phosphodiester bonds within small RNA bulges in the presence and absence of metal ion catalysts
-
U. Kaukinen, L. Bielecki, S. Mikkola, R.W. Adamiak, and H. Lönnberg The cleavage of phosphodiester bonds within small RNA bulges in the presence and absence of metal ion catalysts J Chem Soc, Perkin Trans 2 2001 1024 1031
-
(2001)
J Chem Soc, Perkin Trans
, vol.2
, pp. 1024-1031
-
-
Kaukinen, U.1
Bielecki, L.2
Mikkola, S.3
Adamiak, R.W.4
Lönnberg, H.5
-
20
-
-
0030596092
-
A network of heterogenous hydrogen bonds in GNRA tetraloops
-
F.M. Jucker, H.A. Heus, P.F. Yip, E.H.M. Moors, and A. Pardi A network of heterogenous hydrogen bonds in GNRA tetraloops J Mol Biol 264 1996 968 980
-
(1996)
J Mol Biol
, vol.264
, pp. 968-980
-
-
Jucker, F.M.1
Heus, H.A.2
Yip, P.F.3
Moors, E.H.M.4
Pardi, A.5
-
21
-
-
0001059581
-
PH- and buffer-independent cleavage and mutual isomerization of uridine 2′- and 3′-alkyl phosphodiesters: Implications for the buffer catalyzed cleavage of RNA
-
M. Kosonen, E. Yousefi-Salakdeh, R. Strömberg, and H. Lönnberg pH- and buffer-independent cleavage and mutual isomerization of uridine 2′- and 3′-alkyl phosphodiesters: implications for the buffer catalyzed cleavage of RNA J Chem Soc, Perkin Trans 2 1998 1589 1595
-
(1998)
J Chem Soc, Perkin Trans
, vol.2
, pp. 1589-1595
-
-
Kosonen, M.1
Yousefi-Salakdeh, E.2
Strömberg, R.3
Lönnberg, H.4
-
22
-
-
0042281242
-
Hydrolysis and intramolecular transesterification of ribonucleoside 3′-phosphotriesters: Comparison of structural effects in the reactions of asymmetric and symmetric dialkyl esters of 5′-O-pivaloyl-3′-uridylic acid
-
M. Kosonen, R. Seppänen, O. Wichmann, and H. Lönnberg Hydrolysis and intramolecular transesterification of ribonucleoside 3′-phosphotriesters: comparison of structural effects in the reactions of asymmetric and symmetric dialkyl esters of 5′-O-pivaloyl-3′-uridylic acid J Chem Soc, Perkin Trans 2 1999 2433 2439
-
(1999)
J Chem Soc, Perkin Trans
, vol.2
, pp. 2433-2439
-
-
Kosonen, M.1
Seppänen, R.2
Wichmann, O.3
Lönnberg, H.4
-
23
-
-
0030010889
-
Further studies on the buffer-catalyzed cleavage and isomerization of uridyluridine. Medium and ionic strength effects on catalysis by morpholine, imidazole, and acetate buffers help clarify the mechanisms involved and their relationship to the mechanism used by the enzyme ribonuclease and a ribonuclease mimic
-
R. Breslow, S.D. Dong, Y. Webb, and R. Xu Further studies on the buffer-catalyzed cleavage and isomerization of uridyluridine. Medium and ionic strength effects on catalysis by morpholine, imidazole, and acetate buffers help clarify the mechanisms involved and their relationship to the mechanism used by the enzyme ribonuclease and a ribonuclease mimic J Am Chem Soc 118 1996 6588 6600
-
(1996)
J Am Chem Soc
, vol.118
, pp. 6588-6600
-
-
Breslow, R.1
Dong, S.D.2
Webb, Y.3
Xu, R.4
-
24
-
-
0030902181
-
Unifying the current data on the mechanism of cleavage and transesterification of RNA
-
D.M. Perreault, and E.V. Anslyn Unifying the current data on the mechanism of cleavage and transesterification of RNA Angew Chem Int Ed Engl 36 1997 432 450
-
(1997)
Angew Chem Int Ed Engl
, vol.36
, pp. 432-450
-
-
Perreault, D.M.1
Anslyn, E.V.2
-
25
-
-
0346728721
-
Mechanisms of catalysis by imidazole buffers of the hydrolysis and isomerisation of RNA models
-
C. Beckmann, A.J. Kirby, S. Kuusela, and D.C. Tickle Mechanisms of catalysis by imidazole buffers of the hydrolysis and isomerisation of RNA models J Chem Soc, Perkin Trans 2 1998 573 581
-
(1998)
J Chem Soc, Perkin Trans
, vol.2
, pp. 573-581
-
-
Beckmann, C.1
Kirby, A.J.2
Kuusela, S.3
Tickle, D.C.4
-
26
-
-
0036006072
-
General base catalysis versus medium effects in the hydrolysis of an RNA model
-
A.J. Kirby, and R.E. Marriott General base catalysis versus medium effects in the hydrolysis of an RNA model J Chem Soc, Perkin Trans 2 2002 422 427 A discussion on the pitfalls involved in studies on buffer-catalyzed reactions.
-
(2002)
J Chem Soc, Perkin Trans
, vol.2
, pp. 422-427
-
-
Kirby, A.J.1
Marriott, R.E.2
-
27
-
-
4043055019
-
Guanidinium groups act as general-acid catalysts in phosphoryl transfer reactions: A two-proton inventory on a model system
-
A.M. Piatek, M. Gray, and E.V. Anslyn Guanidinium groups act as general-acid catalysts in phosphoryl transfer reactions: a two-proton inventory on a model system J Am Chem Soc 126 2004 9878 9879
-
(2004)
J Am Chem Soc
, vol.126
, pp. 9878-9879
-
-
Piatek, A.M.1
Gray, M.2
Anslyn, E.V.3
-
28
-
-
0036940303
-
Metal ions in the structure and function of RNA
-
A.M. Pyle Metal ions in the structure and function of RNA J Biol Inorg Chem 7 2002 679 690
-
(2002)
J Biol Inorg Chem
, vol.7
, pp. 679-690
-
-
Pyle, A.M.1
-
29
-
-
0029686767
-
Effect of metal ions on the hydrolytic reactions of nucleosides and their phosphoesters
-
S. Kuusela, and H. Lönnberg Effect of metal ions on the hydrolytic reactions of nucleosides and their phosphoesters Met Ions Biol Syst 32 1996 271 300
-
(1996)
Met Ions Biol Syst
, vol.32
, pp. 271-300
-
-
Kuusela, S.1
Lönnberg, H.2
-
30
-
-
0000019408
-
RNA hydrolysis by cobalt(III) complexes
-
M. Komiyama, Y. Matsumoto, H. Takahashi, T. Shiiba, H. Tsuzuki, H. Yajima, M. Yashiro, and J. Sumaoka RNA hydrolysis by cobalt(III) complexes J Chem Soc, Perkin Trans 2 1998 691 695
-
(1998)
J Chem Soc, Perkin Trans
, vol.2
, pp. 691-695
-
-
Komiyama, M.1
Matsumoto, Y.2
Takahashi, H.3
Shiiba, T.4
Tsuzuki, H.5
Yajima, H.6
Yashiro, M.7
Sumaoka, J.8
-
31
-
-
0000791449
-
The mechanism of the metal ion promoted cleavage of RNA phosphodiester bonds involves a general acid catalysis by the metal aquo ion on the departure of the leaving group
-
S. Mikkola, E. Stenman, K. Nurmi, E. Yousefi-Salakdeh, R. Strömberg, and H. Lönnberg The mechanism of the metal ion promoted cleavage of RNA phosphodiester bonds involves a general acid catalysis by the metal aquo ion on the departure of the leaving group J Chem Soc, Perkin Trans 2 1999 1619 1625
-
(1999)
J Chem Soc, Perkin Trans
, vol.2
, pp. 1619-1625
-
-
Mikkola, S.1
Stenman, E.2
Nurmi, K.3
Yousefi-Salakdeh, E.4
Strömberg, R.5
Lönnberg, H.6
-
33
-
-
84962359838
-
Structure and binding of Mg(II) ions and di-metal bridge complexes with biological phosphates and phosphoranes
-
E. Mayaan, K. Range, and D.M. York Structure and binding of Mg(II) ions and di-metal bridge complexes with biological phosphates and phosphoranes J Biol Inorg Chem 9 2004 807 817
-
(2004)
J Biol Inorg Chem
, vol.9
, pp. 807-817
-
-
Mayaan, E.1
Range, K.2
York, D.M.3
-
34
-
-
0032839614
-
Structure and nuclease activity of simple dinuclear metal complexs: Quantitative dissection of the role of metal ions
-
N.H. Williams, B. Takasaki, M. Wall, and J. Chin Structure and nuclease activity of simple dinuclear metal complexs: quantitative dissection of the role of metal ions Acc Chem Res 32 1999 485 493
-
(1999)
Acc Chem Res
, vol.32
, pp. 485-493
-
-
Williams, N.H.1
Takasaki, B.2
Wall, M.3
Chin, J.4
-
35
-
-
0033572706
-
External transesterification of ribonucleotide esters naturally catalyzed by large ribozymes
-
C.D. Roussev, G.D. Ivanova, E.K. Bratovanova, N.G. Vassilev, and D.D. Petkov External transesterification of ribonucleotide esters naturally catalyzed by large ribozymes J Am Chem Soc 121 1999 11267 11272
-
(1999)
J Am Chem Soc
, vol.121
, pp. 11267-11272
-
-
Roussev, C.D.1
Ivanova, G.D.2
Bratovanova, E.K.3
Vassilev, N.G.4
Petkov, D.D.5
-
36
-
-
17144474195
-
Hydrolysis of 2′,3′-O-methyleneadenos-5′-yl bis(2′,5′-di-O-methylurid-3′-yl) phosphate, a sugar O-alkylated trinucleoside 3′,3′,5′-monophosphate: Implications for the mechanism of large ribozymes
-
T. Lönnberg, and S. Mikkola Hydrolysis of 2′,3′-O- methyleneadenos-5′-yl bis(2′,5′-di-O-methylurid-3′-yl) phosphate, a sugar O-alkylated trinucleoside 3′,3′,5′- monophosphate: implications for the mechanism of large ribozymes J Org Chem 69 2004 802 810
-
(2004)
J Org Chem
, vol.69
, pp. 802-810
-
-
Lönnberg, T.1
Mikkola, S.2
-
37
-
-
33845471091
-
2-) group transfer from an oxygen donor
-
2-) group transfer from an oxygen donor J Org Chem 49 1984 1200 1204
-
(1984)
J Org Chem
, vol.49
, pp. 1200-1204
-
-
Bourne, N.1
Williams, A.J.2
-
38
-
-
0035955184
-
Hydrolysis of phosphotriesters: Determination of transition states in parallel reactions by heavy-atom isotope effects
-
M.A. Anderson, H. Shim, F.M. Raushel, and W.W. Cleland Hydrolysis of phosphotriesters: determination of transition states in parallel reactions by heavy-atom isotope effects J Am Chem Soc 123 2001 9246 9253
-
(2001)
J Am Chem Soc
, vol.123
, pp. 9246-9253
-
-
Anderson, M.A.1
Shim, H.2
Raushel, F.M.3
Cleland, W.W.4
-
39
-
-
4444261545
-
Hydrolytic reactions of guanosyl-(3′,3′)-uridine and guanosyl-(3′,3′)-(2′,5′-di-O-methyluridine)
-
A. Kiviniemi, T. Lönnberg, and M. Ora Hydrolytic reactions of guanosyl-(3′,3′)-uridine and guanosyl-(3′,3′)-(2′, 5′-di-O-methyluridine) J Am Chem Soc 126 2004 11040 11045
-
(2004)
J Am Chem Soc
, vol.126
, pp. 11040-11045
-
-
Kiviniemi, A.1
Lönnberg, T.2
Ora, M.3
-
40
-
-
19744367713
-
Hydrolysis of 2′,3′-O-methyleneadenosin-5′-yl bis-5′-O-methyluridin-3′-yl phosphate: The 2′-hydroxy group stabilizes the phosphorane intermediate, not the departing 3′-oxyanion, by hydrogen bonding
-
T. Lönnberg, and J. Korhonen Hydrolysis of 2′,3′-O- methyleneadenosin-5′-yl bis-5′-O-methyluridin-3′-yl phosphate: the 2′-hydroxy group stabilizes the phosphorane intermediate, not the departing 3′-oxyanion, by hydrogen bonding J Am Chem Soc 127 2005 7752 7758 Interesting results on the origin of the rate-accelerating effect of a hydroxyl function neighboring the scissile PO bond.
-
(2005)
J Am Chem Soc
, vol.127
, pp. 7752-7758
-
-
Lönnberg, T.1
Korhonen, J.2
-
41
-
-
8844250755
-
Acidity of secondary hydroxyls in ATP and adenosine analogues and the question of a 2′,3′-hydrogen bond in ribonucleosides
-
H. Åström, E. Limen, and R. Strömberg Acidity of secondary hydroxyls in ATP and adenosine analogues and the question of a 2′,3′-hydrogen bond in ribonucleosides J Am Chem Soc 126 2004 14710 14711
-
(2004)
J Am Chem Soc
, vol.126
, pp. 14710-14711
-
-
Åström, H.1
Limen, E.2
Strömberg, R.3
-
42
-
-
13644256795
-
Phosphodiester cleavage of guanylyl-(3′,3′)-(2′-amino- 2′-deoxyuridine): Rate-acceleration by the 2′-amino function
-
M. Ora, H. Linjalahti, and H. Lönnberg Phosphodiester cleavage of guanylyl-(3′,3′)-(2′-amino-2′-deoxyuridine): rate-acceleration by the 2′-amino function J Am Chem Soc 127 2005 1826 1832
-
(2005)
J Am Chem Soc
, vol.127
, pp. 1826-1832
-
-
Ora, M.1
Linjalahti, H.2
Lönnberg, H.3
-
43
-
-
20644434704
-
2′/3′-O-Peptidyl adenosine as a general base catalyst of its own external peptidyl transfer: Implications for the ribosome catalytic mechanism
-
M.M. Changalov, G.D. Ivanova, M.A. Rangelov, P. Acharya, S. Acharya, N. Minakawa, A. Földesi, I.B. Stoineva, V.M. Yomtova, and C.D. Roussev 2′/3′-O-Peptidyl adenosine as a general base catalyst of its own external peptidyl transfer: implications for the ribosome catalytic mechanism ChemBioChem 6 2005 992 996
-
(2005)
ChemBioChem
, vol.6
, pp. 992-996
-
-
Changalov, M.M.1
Ivanova, G.D.2
Rangelov, M.A.3
Acharya, P.4
Acharya, S.5
Minakawa, N.6
Földesi, A.7
Stoineva, I.B.8
Yomtova, V.M.9
Roussev, C.D.10
-
44
-
-
0035909314
-
Splicing-related catalysis by protein-free snRNAs
-
S. Valadkhan, and L.J. Manley Splicing-related catalysis by protein-free snRNAs Nature 413 2001 701 707
-
(2001)
Nature
, vol.413
, pp. 701-707
-
-
Valadkhan, S.1
Manley, L.J.2
-
45
-
-
16244392714
-
Hydrolytic stability of 2′,3′-methyleneadenos-5′-yl 2′,5′-di-O-methylurid-3′-yl 5′-O-methylurid- 3′(2′)-yl phosphate: Implications to feasibility of existence of phosphate-branched RNA under physiological conditions
-
T. Lönnberg, J. Kiiski, and S. Mikkola Hydrolytic stability of 2′,3′-methyleneadenos-5′-yl 2′,5′-di-O-methylurid- 3′-yl 5′-O-methylurid-3′(2′)-yl phosphate: implications to feasibility of existence of phosphate-branched RNA under physiological conditions Org Biomol Chem 3 2005 1089 1096
-
(2005)
Org Biomol Chem
, vol.3
, pp. 1089-1096
-
-
Lönnberg, T.1
Kiiski, J.2
Mikkola, S.3
|