-
4
-
-
0027990605
-
-
M. E. Harris et al., EMBO J. 13, 3953 (1994).
-
(1994)
EMBO J.
, vol.13
, pp. 3953
-
-
Harris, M.E.1
-
7
-
-
0029820625
-
-
J. H. Cate et al., Science 273, 1678 (1996).
-
(1996)
Science
, vol.273
, pp. 1678
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-
Cate, J.H.1
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9
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0001099937
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The N3 of the 5′ adenosine is 2.8 to 3.4 Å from the N6 of the 3′ adenosine in the platform; coordinate error in the current model is approximately 0.4 Å, determined according to P. V. Luzzati [Acta Crystallogr. 5, 802 (1955)].
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(1955)
Acta Crystallogr.
, vol.5
, pp. 802
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Luzzati, P.V.1
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11
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0003458038
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Springer-Verlag, New York
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In the two platforms in internal loops (J6/6a and J6a/ 6b), the 5′-A pucker is O4′-endo, C1′-exo; in L5c the 5′-A of the platform has C3′-exo sugar pucker. Canonical A-form helices have C3′-endo ribose puckers; W. Saenger, Principles of Nucleic Acid Structure (Springer-Verlag, New York, 1984), pp. 55-68.
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(1984)
Principles of Nucleic Acid Structure
, pp. 55-68
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Saenger, W.1
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12
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85035171753
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note
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C electron density map is consistent with a metal ion or water molecule in the major groove coordinated to the ribose and phosphate of the 5′ A and 3′ A of the platform, respectively, and to N7 and 06 of the G in the G·U wobble below the motif. In the L5c loop platform, however, there is density for a putative magnesium ion coordinated to phosphates of the 3′ A of the platform and the adjacent A of the A·U noncanonical pair. Both molecules in the asymmetric unit reflect these differences between the platforms.
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14
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85035180789
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note
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1 in side-by-side experiments. Preliminary RNA splicing analysis of a precursor RNA with a two-base change in the third adenosine platform, A171-A172 to U-U, showed a twofold reduction in activity at low magnesium ion concentration (5 mM) and even less of an effect at higher magnesium concentrations. One example each of potential C-U and U-C platforms occurs in the tetraloop receptor motif of group I introns in subclasses IC1 and IC3.
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18
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85035172315
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note
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In the internal-loop A platforms, the 3′ A is always susceptible to methylation. In the L5c platform, the 3′ A is protected only in the intact intron.
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19
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0020741225
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The solvent accessible surface of the molecule was determined with a probe of radius 2.0 for adenosine modification Å, the "effective" radius of dimethyl sulfate determined by the method of S. R. Holbrook and S.-H. Kim [Biopolymers 22, 1145 (1983)].
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(1983)
Biopolymers
, vol.22
, pp. 1145
-
-
Holbrook, S.R.1
Kim, S.-H.2
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20
-
-
0026651395
-
-
J. D. Puglisi, R. Tan, B. J. Calnan, A. D. Frankel, J. R. Williamson. Science 257, 76 (1992); F. Aboul-ela, J. Kam, G. Varani, J. Mol. Biol. 253, 313 (1995); Y. Yang, M. Kochoyan, P. Burgstaller, E. Westhof, M. Famulok, Science 272, 1343 (1996); F. Jiang, R. A. Kumar, R. A. Jones, D. J. Patel, Nature 382, 171 (1996); T. Dieckmann, E. Suzuki, G. K. Nakamura, J. Feigon, RNA, in press.
-
(1992)
Science
, vol.257
, pp. 76
-
-
Puglisi, J.D.1
Tan, R.2
Calnan, B.J.3
Frankel, A.D.4
Williamson, J.R.5
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21
-
-
0028864394
-
-
J. D. Puglisi, R. Tan, B. J. Calnan, A. D. Frankel, J. R. Williamson. Science 257, 76 (1992); F. Aboul-ela, J. Kam, G. Varani, J. Mol. Biol. 253, 313 (1995); Y. Yang, M. Kochoyan, P. Burgstaller, E. Westhof, M. Famulok, Science 272, 1343 (1996); F. Jiang, R. A. Kumar, R. A. Jones, D. J. Patel, Nature 382, 171 (1996); T. Dieckmann, E. Suzuki, G. K. Nakamura, J. Feigon, RNA, in press.
-
(1995)
J. Mol. Biol.
, vol.253
, pp. 313
-
-
Aboul-ela, F.1
Kam, J.2
Varani, G.3
-
22
-
-
0029972909
-
-
J. D. Puglisi, R. Tan, B. J. Calnan, A. D. Frankel, J. R. Williamson. Science 257, 76 (1992); F. Aboul-ela, J. Kam, G. Varani, J. Mol. Biol. 253, 313 (1995); Y. Yang, M. Kochoyan, P. Burgstaller, E. Westhof, M. Famulok, Science 272, 1343 (1996); F. Jiang, R. A. Kumar, R. A. Jones, D. J. Patel, Nature 382, 171 (1996); T. Dieckmann, E. Suzuki, G. K. Nakamura, J. Feigon, RNA, in press.
-
(1996)
Science
, vol.272
, pp. 1343
-
-
Yang, Y.1
Kochoyan, M.2
Burgstaller, P.3
Westhof, E.4
Famulok, M.5
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23
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0026651395
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J. D. Puglisi, R. Tan, B. J. Calnan, A. D. Frankel, J. R. Williamson. Science 257, 76 (1992); F. Aboul-ela, J. Kam, G. Varani, J. Mol. Biol. 253, 313 (1995); Y. Yang, M. Kochoyan, P. Burgstaller, E. Westhof, M. Famulok, Science 272, 1343 (1996); F. Jiang, R. A. Kumar, R. A. Jones, D. J. Patel, Nature 382, 171 (1996); T. Dieckmann, E. Suzuki, G. K. Nakamura, J. Feigon, RNA, in press.
-
(1996)
Nature
, vol.382
, pp. 171
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-
Jiang, F.1
Kumar, R.A.2
Jones, R.A.3
Patel, D.J.4
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24
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0026651395
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in press
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J. D. Puglisi, R. Tan, B. J. Calnan, A. D. Frankel, J. R. Williamson. Science 257, 76 (1992); F. Aboul-ela, J. Kam, G. Varani, J. Mol. Biol. 253, 313 (1995); Y. Yang, M. Kochoyan, P. Burgstaller, E. Westhof, M. Famulok, Science 272, 1343 (1996); F. Jiang, R. A. Kumar, R. A. Jones, D. J. Patel, Nature 382, 171 (1996); T. Dieckmann, E. Suzuki, G. K. Nakamura, J. Feigon, RNA, in press.
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RNA
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Dieckmann, T.1
Suzuki, E.2
Nakamura, G.K.3
Feigon, J.4
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26
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85035181232
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note
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Mutation of the J5a/6b platform in P4-P6 from A-A to G-A produced a P4-P6 derivative that appeared to fold correctly in solution (5), but the RNA was not tested for activity.
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29
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85035175982
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note
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We thank K. Blount, D. Sheehan, and A. Zaug for functional assays; F. Michel, P. Moore, and A. M. Pyle for helpful discussions; and A. Ferré-d'Amaré, S. Strobel, and T. Griffin for review of the manuscript. This work was funded by the Lucille P. Markey Charitable Trust, the Donaghue Medical Research Foundation and NIH grant GM22778-21 (J.A.D.), NIH training grant 5T32GM08283-07 (J.H.C.), American Cancer Society postdoctoral fellowship (B.L.G.), NSF grant MCB-9221307 (C.E.K.), Howard Hughes Medical Institute (T.R.C.), and the Keck Foundation (C.E.K. and T.R.C.); T.R.C. is a Howard Hughes Medical Institute Investigator; J.A.D. is a Lucille P. Markey Scholar in Biomedical Science, a Young Investigator of the Donaghue Medical Research Foundation, a Searle Scholar, and a Beckman Young Investigator.
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