-
1
-
-
3042848954
-
Crystal structure of a self-splicing group I intron with both exons
-
DOI 10.1038/nature02642
-
Adams P, Stahley M, Kosek A, Wang J, Strobel S. 2004. Crystal structure of a self-splicing group I intron with both exons. Nature 430: 45-50. (Pubitemid 38915218)
-
(2004)
Nature
, vol.430
, Issue.6995
, pp. 45-50
-
-
Adams, P.L.1
Stahley, M.R.2
Kosek, A.B.3
Wang, J.4
Strobel, S.A.5
-
2
-
-
0027434244
-
Thermal unfolding of a group I ribozyme: The low-temperature transition is primarily disruption of tertiary structure
-
DOI 10.1021/bi00052a021
-
Banerjee AR, Jaeger JA, Turner DH. 1993. Thermal unfolding of a group I ribozyme: the low-temperature transition is primarily disruption of tertiary structure. Biochemistry 32: 153-163. (Pubitemid 23033332)
-
(1993)
Biochemistry
, vol.32
, Issue.1
, pp. 153-163
-
-
Banerjee, A.R.1
Jaeger, J.A.2
Turner, D.H.3
-
3
-
-
0031790171
-
A specific monovalent metal ion integral to the AA platform of the RNA tetraloop receptor
-
DOI 10.1038/2960
-
Basu S, Rambo RP, Strauss-Soukup J, Cate JH, Ferre-D'Amare AR, Strobel SA, Doudna JA. 1998. A specific monovalent metal ion integral to the AA platform of the RNA tetraloop receptor. Nat Struct Biol 5: 986-992. (Pubitemid 28506632)
-
(1998)
Nature Structural Biology
, vol.5
, Issue.11
, pp. 986-992
-
-
Basu, S.1
Rambo, R.P.2
Strauss-Soukup, J.3
Cate, J.H.4
Ferre-D'Amare, A.R.5
Strobel, S.A.6
Doudna, J.A.7
-
4
-
-
0032991584
-
Influence of specific mutations on the thermal stability of the td group I intron in vitro and on its splicing efficiency in vivo: A comparative study
-
DOI 10.1017/S1355838299990477
-
Brion P, Schroeder R, Michel F, Westhof E. 1999. Influence of specific mutations on the thermal stability of the td group I intron in vitro and on its splicing efficiency in vivo: a comparative study. RNA 5: 947-958. (Pubitemid 29321074)
-
(1999)
RNA
, vol.5
, Issue.7
, pp. 947-958
-
-
Brion, P.1
Schroeder, R.2
Michel, F.3
Westhof, E.4
-
5
-
-
0023664964
-
Structural conventions for group I introns
-
Burke JM, Belfort M, Cech TR, Davies RW, Schweyen RJ, Shub DA, Szostak JW, Tabak HF. 1987. Structural conventions for group I introns. Nucleic Acids Res 15: 7217-7221.
-
(1987)
Nucleic Acids Res
, vol.15
, pp. 7217-7221
-
-
Burke, J.M.1
Belfort, M.2
Cech, T.R.3
Davies, R.W.4
Schweyen, R.J.5
Shub, D.A.6
Szostak, J.W.7
Tabak, H.F.8
-
6
-
-
58049200632
-
Comparison of successive transition states for folding reveals alternative early folding pathways of two homologous proteins
-
Calosci N, Chi CN, Richter B, Camilloni C, Engstrom A, Eklund L, Travaglini-Allocatelli C, Gianni S, Vendruscolo M, Jemth P. 2008. Comparison of successive transition states for folding reveals alternative early folding pathways of two homologous proteins. Proc Natl Acad Sci 105: 19241-19246.
-
(2008)
Proc Natl Acad Sci
, vol.105
, pp. 19241-19246
-
-
Calosci, N.1
Chi, C.N.2
Richter, B.3
Camilloni, C.4
Engstrom, A.5
Eklund, L.6
Travaglini-Allocatelli, C.7
Gianni, S.8
Vendruscolo, M.9
Jemth, P.10
-
7
-
-
2942571539
-
The comparative RNA web (CRW) site: An online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
-
doi: 10.1186/1471-2105-3-2
-
Cannone JJ, Subramanian S, Schnare MN, Collett JR, D'Souza LM, Du Y, Feng B, Lin N, Madabusi LV, Muller KM, et al. 2002. The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics 3: 2. doi: 10.1186/1471-2105-3-2.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 2
-
-
Cannone, J.J.1
Subramanian, S.2
Schnare, M.N.3
Collett, J.R.4
D'Souza, L.M.5
Du, Y.6
Feng, B.7
Lin, N.8
Madabusi, L.V.9
Muller, K.M.10
-
8
-
-
0029820625
-
Crystal structure of a group I ribozyme domain: Principles of RNA packing
-
Cate J, Gooding A, Podell E, Zhou K, Golden B, Kundrot C, Cech T, Doudna J. 1996. Crystal structure of a group I ribozyme domain: principles of RNA packing. Science 273: 1678-1685. (Pubitemid 26317777)
-
(1996)
Science
, vol.273
, Issue.5282
, pp. 1678-1685
-
-
Cate, J.H.1
Gooding, A.R.2
Podell, E.3
Zhou, K.4
Golden, B.L.5
Kundrot, C.E.6
Cech, T.R.7
Doudna, J.A.8
-
9
-
-
0026409841
-
Characterization of the cytoplasm of Escherichia coli K-12 as a function of external osmolarity: Implications for protein-DNA interactions in vivo
-
Cayley S, Lewis BA, Guttman HJ, Record MT Jr. 1991. Characterization of the cytoplasm of Escherichia coli K-12 as a function of external osmolarity. Implications for protein-DNA interactions in vivo. J Mol Biol 222: 281-300. (Pubitemid 121004007)
-
(1991)
Journal of Molecular Biology
, vol.222
, Issue.2
, pp. 281-300
-
-
Cayley, S.1
Lewis, B.A.2
Guttman, H.J.3
Record Jr., M.T.4
-
10
-
-
0025367254
-
Self-splicing of group I introns
-
Cech TR. 1990. Self-splicing of group I introns. Annu Rev Biochem 59: 543-568.
-
(1990)
Annu Rev Biochem
, vol.59
, pp. 543-568
-
-
Cech, T.R.1
-
11
-
-
38649085954
-
Tertiary interactions determine the accuracy of RNA folding
-
DOI 10.1021/ja076166i
-
Chauhan S, Woodson SA. 2008. Tertiary interactions determine the accuracy of RNA folding. J Am Chem Soc 130: 1296-1303. (Pubitemid 351171008)
-
(2008)
Journal of the American Chemical Society
, vol.130
, Issue.4
, pp. 1296-1303
-
-
Chauhan, S.1
Woodson, S.A.2
-
12
-
-
60149088502
-
Structural rearrangements linked to global folding pathways of the Azoarcus group I ribozyme
-
Chauhan S, Behrouzi R, Rangan P, Woodson SA. 2009. Structural rearrangements linked to global folding pathways of the Azoarcus group I ribozyme. J Mol Biol 386: 1167-1178.
-
(2009)
J Mol Biol
, vol.386
, pp. 1167-1178
-
-
Chauhan, S.1
Behrouzi, R.2
Rangan, P.3
Woodson, S.A.4
-
13
-
-
0028921811
-
Frequent use of the same tertiary motif by self-folding RNAs
-
Costa M, 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
-
14
-
-
0030959348
-
Rules for RNA recognition of GNRA tetraloops deduced by vitro selection: Comparison with in vivo evolution
-
DOI 10.1093/emboj/16.11.3289
-
Costa M, Michel F. 1997. Rules for RNA recognition of GNRA tetraloops deduced by in vitro selection: comparison with in vivo evolution. EMBO J 16: 3289-3302. (Pubitemid 27234966)
-
(1997)
EMBO Journal
, vol.16
, Issue.11
, pp. 3289-3302
-
-
Costa, M.1
Michel, F.2
-
15
-
-
13944278373
-
SAFA: Semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments
-
DOI 10.1261/rna.7214405
-
Das R, Laederach A, Pearlman SM, Herschlag D, Altman RB. 2005. SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments. RNA 11: 344-354. (Pubitemid 40270826)
-
(2005)
RNA
, vol.11
, Issue.3
, pp. 344-354
-
-
Das, R.1
Laederach, A.2
Pearlman, S.M.3
Herschlag, D.4
Altman, R.B.5
-
17
-
-
0035073865
-
A universal mode of helix packing in RNA
-
DOI 10.1038/86221
-
Doherty EA, Batey RT, Masquida B, Doudna JA. 2001. A universal mode of helix packing in RNA. Nat Struct Biol 8: 339-343. (Pubitemid 32275020)
-
(2001)
Nature Structural Biology
, vol.8
, Issue.4
, pp. 339-343
-
-
Doherty, E.A.1
Batey, R.T.2
Masquida, B.3
Doudna, J.A.4
-
18
-
-
0034646209
-
The P5abc peripheral element facilitates preorganization of the Tetrahymena group I ribozyme for catalysis
-
DOI 10.1021/bi992313g
-
Engelhardt MA, Doherty EA, Knitt DS, Doudna JA, Herschlag D. 2000. The P5abc peripheral element facilitates preorganization of the Tetrahymena group I ribozyme for catalysis. Biochemistry 39: 2639-2651. (Pubitemid 30148917)
-
(2000)
Biochemistry
, vol.39
, Issue.10
, pp. 2639-2651
-
-
Engelhardt, M.A.1
Doherty, E.A.2
Knitt, D.S.3
Doudna, J.A.4
Herschlag, D.5
-
19
-
-
0032590020
-
Mg2+-dependent folding of a large ribozyme without kinetic traps
-
Fang XW, Pan T, Sosnick TR. 1999. Mg2+-dependent folding of a large ribozyme without kinetic traps. Nat Struct Biol 6: 1091-1095.
-
(1999)
Nat Struct Biol
, vol.6
, pp. 1091-1095
-
-
Fang, X.W.1
Pan, T.2
Sosnick, T.R.3
-
20
-
-
40249103230
-
Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors
-
DOI 10.1093/nar/gkm1048
-
Geary C, Baudrey S, Jaeger L. 2008. Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors. Nucleic Acids Res 36: 1138-1152. (Pubitemid 351330932)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.4
, pp. 1138-1152
-
-
Geary, C.1
Baudrey, S.2
Jaeger, L.3
-
21
-
-
11444263264
-
Crystal structure of a phage Twort group I ribozyme-product complex
-
DOI 10.1038/nsmb868
-
Golden BL, Kim H, Chase E. 2005. Crystal structure of a phage Twort group I ribozyme-product complex. Nat Struct Mol Biol 12: 82-89. (Pubitemid 40082921)
-
(2005)
Nature Structural and Molecular Biology
, vol.12
, Issue.1
, pp. 82-89
-
-
Golden, B.L.1
Kim, H.2
Chase, E.3
-
22
-
-
8644229237
-
Structure of the tetrahymena ribozyme: Base triple sandwich and metal ion at the active site
-
DOI 10.1016/j.molcel.2004.10.003, PII S1097276504005921
-
Guo F, Gooding AR, Cech TR. 2004. Structure of the Tetrahymena ribozyme: base triple sandwich and metal ion at the active site. Mol Cell 16: 351-362. (Pubitemid 39504790)
-
(2004)
Molecular Cell
, vol.16
, Issue.3
, pp. 351-362
-
-
Guo, F.1
Gooding, A.R.2
Cech, T.R.3
-
23
-
-
0022719007
-
Higher order structure in ribosomal RNA
-
Gutell RR, Noller HF, Woese CR. 1986. Higher order structure in ribosomal RNA. EMBO J 5: 1111-1113.
-
(1986)
EMBO J
, vol.5
, pp. 1111-1113
-
-
Gutell, R.R.1
Noller, H.F.2
Woese, C.R.3
-
24
-
-
0034405491
-
A story: Unpaired adenosine bases in ribosomal RNAs
-
Gutell RR, Cannone JJ, Shang Z, Du Y, Serra MJ. 2000. A story: unpaired adenosine bases in ribosomal RNAs. J Mol Biol 304: 335-354.
-
(2000)
J Mol Biol
, vol.304
, pp. 335-354
-
-
Gutell, R.R.1
Cannone, J.J.2
Shang, Z.3
Du, Y.4
Serra, M.J.5
-
25
-
-
0033570893
-
Self-splicing of the Tetrahymena intron from mRNA in mammalian cells
-
DOI 10.1093/emboj/18.22.6491
-
Hagen M, Cech TR. 1999. Self-splicing of the Tetrahymena intron from mRNA in mammalian cells. EMBO J 18: 6491-6500. (Pubitemid 29533253)
-
(1999)
EMBO Journal
, vol.18
, Issue.22
, pp. 6491-6500
-
-
Hagen, M.1
Cech, T.R.2
-
26
-
-
0025085590
-
Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site
-
Herschlag D, Cech TR. 1990a. Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site. Biochemistry 29: 10159-10171.
-
(1990)
Biochemistry
, vol.29
, pp. 10159-10171
-
-
Herschlag, D.1
Cech, T.R.2
-
27
-
-
0025149015
-
Catalysis of RNA cleavage by the Tetrahymena thermaphila ribozyme. 2. Kinetic description of the reaction of an RNA substrate that forms a mismatch at the active site
-
Herschlag D, Cech TR. 1990b. Catalysis of RNA cleavage by the Tetrahymena thermaphila ribozyme. 2. Kinetic description of the reaction of an RNA substrate that forms a mismatch at the active site. Biochemistry 29: 10172-10180.
-
(1990)
Biochemistry
, vol.29
, pp. 10172-10180
-
-
Herschlag, D.1
Cech, T.R.2
-
28
-
-
33744785989
-
-
Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
-
Hougland JL, Piccirilli JA, Forconi M, Lee J, Herschlag D. 2006. How the Group I intron works: A case study of RNA structure and function. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
-
(2006)
How the Group I Intron Works: A Case Study of RNA Structure and Function
-
-
Hougland, J.L.1
Piccirilli, J.A.2
Forconi, M.3
Lee, J.4
Herschlag, D.5
-
29
-
-
0029963656
-
A simple method for 39-labeling of RNA
-
Huang Z, Szostak JW. 1996. A simple method for 39-labeling of RNA. Nucleic Acids Res 24: 4360-4361.
-
(1996)
Nucleic Acids Res
, vol.24
, pp. 4360-4361
-
-
Huang, Z.1
Szostak, J.W.2
-
30
-
-
0034859319
-
A comparative study on two GNRA-tetraloop receptors: 11-nt and IC3 motifs
-
Ikawa Y, Nohmi K, Atsumi S, Shiraishi H, Inoue T. 2001. A comparative study on two GNRA-tetraloop receptors: 11-nt and IC3 motifs. J Biochem 130: 251-255. (Pubitemid 32785872)
-
(2001)
Journal of Biochemistry
, vol.130
, Issue.2
, pp. 251-255
-
-
Ikawa, Y.1
Nohmi, K.2
Atsumi, S.3
Shiraishi, H.4
Inoue, T.5
-
31
-
-
22544439312
-
Structural specificity conferred by a group I RNA peripheral element
-
DOI 10.1073/pnas.0501498102
-
Johnson TH, Tijerina P, Chadee AB, Herschlag D, Russell R. 2005. Structural specificity conferred by a group I RNA peripheral element. Proc Natl Acad Sci 102: 10176-10181. (Pubitemid 41023345)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.29
, pp. 10176-10181
-
-
Johnson, T.H.1
Tijerina, P.2
Chadee, A.B.3
Herschlag, D.4
Russell, R.5
-
32
-
-
28844509318
-
Concordant exploration of the kinetics of RNA folding from global and local perspectives
-
DOI 10.1016/j.jmb.2005.10.070, PII S0022283605013306
-
Kwok L, Shcherbakova I, Lamb J, Park H, Andresen K, Smith H, Brenowitz M, Pollack L. 2006. Concordant exploration of the kinetics of RNA folding from global and local perspectives. J Mol Biol 355: 282-293. (Pubitemid 41774131)
-
(2006)
Journal of Molecular Biology
, vol.355
, Issue.2
, pp. 282-293
-
-
Kwok, L.W.1
Shcherbakova, I.2
Lamb, J.S.3
Park, H.Y.4
Andresen, K.5
Smith, H.6
Brenowitz, M.7
Pollack, L.8
-
33
-
-
33646089899
-
Local kinetic measures of macromolecular structure reveal partitioning among multiple parallel pathways from the earliest steps in the folding of a large RNA molecule
-
Laederach A, Shcherbakova I, Liang MP, Brenowitz M, Altman RB. 2006. Local kinetic measures of macromolecular structure reveal partitioning among multiple parallel pathways from the earliest steps in the folding of a large RNA molecule. J Mol Biol 358: 1179-1190.
-
(2006)
J Mol Biol
, vol.358
, pp. 1179-1190
-
-
Laederach, A.1
Shcherbakova, I.2
Liang, M.P.3
Brenowitz, M.4
Altman, R.B.5
-
34
-
-
34249850484
-
Distinct contribution of electrostatics, initial conformational ensemble, and macromolecular stability in RNA folding
-
DOI 10.1073/pnas.0608765104
-
Laederach A, Shcherbakova I, Jonikas MA, Altman RB, Brenowitz M. 2007. Distinct contribution of electrostatics, initial conformational ensemble, and macromolecular stability in RNA folding. Proc Natl Acad Sci 104: 7045-7050. (Pubitemid 47186006)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.17
, pp. 7045-7050
-
-
Laederach, A.1
Shcherbakova, I.2
Jonikas, M.A.3
Altman, R.B.4
Brenowitz, M.5
-
35
-
-
0033536050
-
Unexpected abundance of self-splicing introns in the genome of bacteriophage Twort: Introns in multiple genes, a single gene with three introns, and exon skipping by group I ribozymes
-
DOI 10.1073/pnas.96.12.7005
-
Landthaler M, Shub DA. 1999. Unexpected abundance of self-splicing introns in the genome of bacteriophage Twort: introns in multiple genes, a single gene with three introns, and exon skipping by group I ribozymes. Proc Natl Acad Sci 96: 7005-7010. (Pubitemid 29275000)
-
(1999)
Proceedings of the National Academy of Sciences of the United States of America
, vol.96
, Issue.12
, pp. 7005-7010
-
-
Landthaler, M.1
Shub, D.A.2
-
36
-
-
33745951899
-
The UAA/GAN Internal Loop Motif: A New RNA Structural Element that Forms a Cross-strand AAA Stack and Long-range Tertiary Interactions
-
DOI 10.1016/j.jmb.2006.05.066, PII S0022283606006838
-
Lee JC, Gutell RR, Russell R. 2006. The UAA/GAN internal loop motif: a new RNA structural element that forms a cross-strand AAA stack and long-range tertiary interactions. J Mol Biol 360: 978-988. (Pubitemid 44062516)
-
(2006)
Journal of Molecular Biology
, vol.360
, Issue.5
, pp. 978-988
-
-
Lee, J.C.1
Gutell, R.R.2
Russell, R.3
-
37
-
-
0030452773
-
New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: A complete 3d model of the Tetrahymena thermophila ribozyme
-
Lehnert V, Jaeger L, Michel F, Westhof E. 1996. New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: a complete 3D model of the Tetrahymena thermophila ribozyme. Chem Biol 3: 993-1009. (Pubitemid 27058823)
-
(1996)
Chemistry and Biology
, vol.3
, Issue.12
, pp. 993-1009
-
-
Lehnert, V.1
Jaeger, L.2
Michel, F.3
Westhof, E.4
-
38
-
-
0033536602
-
Evolutionarily conserved pathways of energetic connectivity in protein families
-
DOI 10.1126/science.286.5438.295
-
Lockless SW, Ranganathan R. 1999. Evolutionarily conserved pathways of energetic connectivity in protein families. Science 286: 295-299. (Pubitemid 29484693)
-
(1999)
Science
, vol.286
, Issue.5438
, pp. 295-299
-
-
Lockless, S.W.1
Ranganathan, R.2
-
39
-
-
79960444497
-
Exhaustive enumeration of kinetic model topologies for the analysis of time-resolved RNA folding
-
Martin JS, Simmons K, Laederach A. 2009. Exhaustive enumeration of kinetic model topologies for the analysis of time-resolved RNA folding. Algorithms Mol Biol 2: 200-214.
-
(2009)
Algorithms Mol Biol
, vol.2
, pp. 200-214
-
-
Martin, J.S.1
Simmons, K.2
Laederach, A.3
-
40
-
-
0024358426
-
Mapping the transition state and pathway of protein folding by protein engineering
-
DOI 10.1038/340122a0
-
Matouschek A, Kellis JJ, Serrano L, Fersht A. 1989. Mapping the transition state and pathway of protein folding by protein engineering. Nature 340: 122-126. (Pubitemid 19175363)
-
(1989)
Nature
, vol.340
, Issue.6229
, pp. 122-126
-
-
Matouschek, A.1
Kellis Jr., J.T.2
Serrano, L.3
Fersht, A.R.4
-
41
-
-
20044363782
-
Protein folding: Defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins
-
Maxwell KL, Wildes D, Zarrine-Afsar A, De Los Rios MA, Brown AG, Friel CT, Hedberg L, Horng JC, Bona D, Miller EJ, et al 2005. Protein folding: defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins. Protein Sci 14: 602-616.
-
(2005)
Protein Sci
, vol.14
, pp. 602-616
-
-
Maxwell, K.L.1
Wildes, D.2
Zarrine-Afsar, A.3
De Los Rios, M.A.4
Brown, A.G.5
Friel, C.T.6
Hedberg, L.7
Horng, J.C.8
Bona, D.9
Miller, E.J.10
-
42
-
-
0025678737
-
Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis
-
Michel F, Westhof E. 1990. Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis. J Mol Biol 216: 585-610. (Pubitemid 120037393)
-
(1990)
Journal of Molecular Biology
, vol.216
, Issue.3
, pp. 585-610
-
-
Michel, F.1
Westhof, E.2
-
43
-
-
33745216899
-
Improved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques
-
Philo JS. 2006. Improved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques. Anal Biochem 354: 238-246.
-
(2006)
Anal Biochem
, vol.354
, pp. 238-246
-
-
Philo, J.S.1
-
44
-
-
44049104652
-
Group I introns and GNRA tetraloops: Remnants of 'The RNA world'?
-
Prathiba J, Malathi R. 2008. Group I introns and GNRA tetraloops: remnants of 'The RNA world'? Mol Biol Rep 35: 239-249.
-
(2008)
Mol Biol Rep
, vol.35
, pp. 239-249
-
-
Prathiba, J.1
Malathi, R.2
-
45
-
-
0038737980
-
2+ binding in the group I intron core
-
DOI 10.1016/S0022-2836(03)00430-3
-
Rangan P, Woodson SA. 2003. Structural requirement for Mg2+ binding in the group I intron core. J Mol Biol 329: 229-238. (Pubitemid 36561580)
-
(2003)
Journal of Molecular Biology
, vol.329
, Issue.2
, pp. 229-238
-
-
Rangan, P.1
Woodson, S.A.2
-
46
-
-
0037452797
-
Assembly of core helices and rapid tertiary folding of a small bacterial group I ribozyme
-
DOI 10.1073/pnas.0337743100
-
Rangan P, Masquida B, Westhof E, Woodson SA. 2003. Assembly of core helices and rapid tertiary folding of a small bacterial group I ribozyme. Proc Natl Acad Sci 100: 1574-1579. (Pubitemid 36254489)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.4
, pp. 1574-1579
-
-
Rangan, P.1
Masquida, B.2
Westhof, E.3
Woodson, S.A.4
-
47
-
-
0026599998
-
Self-splicing introns in tRNA genes of widely divergent bacteria
-
Reinhold-Hurek B, Shub DA. 1992. Self-splicing introns in tRNA genes of widely divergent bacteria. Nature 357: 173-176.
-
(1992)
Nature
, vol.357
, pp. 173-176
-
-
Reinhold-Hurek, B.1
Shub, D.A.2
-
49
-
-
0033520410
-
New pathways in folding of the Tetrahymena group I RNA enzyme
-
DOI 10.1006/jmbi.1999.3026
-
Russell R, Herschlag D. 1999. New pathways in folding of the Tetrahymena group I RNA enzyme. J Mol Biol 291: 1155-1167. (Pubitemid 29423778)
-
(1999)
Journal of Molecular Biology
, vol.291
, Issue.5
, pp. 1155-1167
-
-
Russell, R.1
Herschlag, D.2
-
50
-
-
0035906731
-
Probing the folding landscape of the Tetrahymena ribozyme: Commitment to form the native conformation is late in the folding pathway
-
DOI 10.1006/jmbi.2001.4751
-
Russell R, Herschlag D. 2001. Probing the folding landscape of the Tetrahymena ribozyme: commitment to form the native conformation is late in the folding pathway. J Mol Biol 308: 839-851. (Pubitemid 32574363)
-
(2001)
Journal of Molecular Biology
, vol.308
, Issue.5
, pp. 839-851
-
-
Russell, R.1
Herschlag, D.2
-
51
-
-
0034100560
-
Small angle X-ray scattering reveals a compact intermediate in RNA folding
-
DOI 10.1038/75132
-
Russell R, Millett IS, Doniach S, Herschlag D. 2000. Small angle X-ray scattering reveals a compact intermediate in RNA folding. Nat Struct Biol 7: 367-370. (Pubitemid 30249997)
-
(2000)
Nature Structural Biology
, vol.7
, Issue.5
, pp. 367-370
-
-
Russell, R.1
Millett, I.S.2
Doniach, S.3
Herschlag, D.4
-
52
-
-
0037039464
-
Exploring the folding landscape of a structured RNA
-
DOI 10.1073/pnas.221593598
-
Russell R, Zhuang X, Babcock H, Millett I, Doniach S, Chu S, Herschlag D. 2002. Exploring the folding landscape of a structured RNA. Proc Natl Acad Sci 99: 155-160. (Pubitemid 34060333)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.1
, pp. 155-160
-
-
Russell, R.1
Zhuang, X.2
Babcock, H.P.3
Millett, I.S.4
Doniach, S.5
Chu, S.6
Herschlag, D.7
-
53
-
-
33748936120
-
The Paradoxical Behavior of a Highly Structured Misfolded Intermediate in RNA Folding
-
DOI 10.1016/j.jmb.2006.08.024, PII S0022283606010382
-
Russell R, Das R, Suh H, Travers KJ, Laederach A, Engelhardt MA, Herschlag D. 2006. The paradoxical behavior of a highly structured misfolded intermediate in RNA folding. J Mol Biol 363: 531-544. (Pubitemid 44436255)
-
(2006)
Journal of Molecular Biology
, vol.363
, Issue.2
, pp. 531-544
-
-
Russell, R.1
Das, R.2
Suh, H.3
Travers, K.J.4
Laederach, A.5
Engelhardt, M.A.6
Herschlag, D.7
-
54
-
-
34247606396
-
Deletion of the P5abc peripheral element accelerates early and late folding steps of the Tetrahymena group I ribozyme
-
DOI 10.1021/bi0620149
-
Russell R, Tijerina P, Chadee AB, Bhaskaran H. 2007. Deletion of the P5abc peripheral element accelerates early and late folding steps of the Tetrahymena group I ribozyme. Biochemistry 46: 4951-4961. (Pubitemid 46682994)
-
(2007)
Biochemistry
, vol.46
, Issue.17
, pp. 4951-4961
-
-
Russell, R.1
Tijerina, P.2
Chadee, A.B.3
Bhaskaran, H.4
-
55
-
-
33846573286
-
Self-splicing of the bacteriophage T4 group I introns requires efficient translation of the pre-mRNA in vivo and correlates with the growth state of the infected bacterium
-
DOI 10.1128/JB.01287-06
-
Sandegren L, Sjoberg BM. 2007. Self-splicing of the bacteriophage T4 group I introns requires efficient translation of the pre-mRNA in vivo and correlates with the growth state of the infected bacterium. J Bacteriol 189: 980-990. (Pubitemid 46183873)
-
(2007)
Journal of Bacteriology
, vol.189
, Issue.3
, pp. 980-990
-
-
Sandegren, L.1
Sjoberg, B.-M.2
-
56
-
-
43249119217
-
Direct measurement of tertiary contact cooperativity in RNA folding
-
DOI 10.1021/ja800919q
-
Sattin BD, Zhao W, Travers K, Chu S, Herschlag D. 2008. Direct measurement of tertiary contact cooperativity in RNA folding. J Am Chem Soc 130: 6085-6087. (Pubitemid 351657284)
-
(2008)
Journal of the American Chemical Society
, vol.130
, Issue.19
, pp. 6085-6087
-
-
Sattin, B.D.1
Zhao, W.2
Travers, K.3
Chu, S.4
Herschlag, D.5
-
57
-
-
0032549780
-
RNA folding at millisecond intervals by synchrotron hydroxyl radical footprinting
-
DOI 10.1126/science.279.5358.1940
-
Sclavi B, Sullivan M, Chance MR, Brenowitz M, Woodson SA. 1998. RNA folding at millisecond intervals by synchrotron hydroxyl radical footprinting. Science 279: 1940-1943. (Pubitemid 28168649)
-
(1998)
Science
, vol.279
, Issue.5358
, pp. 1940-1943
-
-
Sclavi, B.1
Sullivan, M.2
Chance, M.R.3
Brenowitz, M.4
Woodson, S.A.5
-
58
-
-
27644457113
-
Perturbation of the hierarchical folding of a large RNA by the destabilization of its scaffold's tertiary structure
-
DOI 10.1016/j.jmb.2005.09.032, PII S0022283605010971
-
Shcherbakova I, Brenowitz M. 2005. Perturbation of the hierarchical folding of a large RNA by the destabilization of its Scaffold's tertiary structure. J Mol Biol 354: 483-496. (Pubitemid 41579860)
-
(2005)
Journal of Molecular Biology
, vol.354
, Issue.2
, pp. 483-496
-
-
Shcherbakova, I.1
Brenowitz, M.2
-
59
-
-
39449112406
-
Monitoring structural changes in nucleic acids with single residue spatial and millisecond time resolution by quantitative hydroxyl radical footprinting
-
DOI 10.1038/nprot.2007.533, PII NPROT.2007.533
-
Shcherbakova I, Brenowitz M. 2008. Monitoring structural changes in nucleic acids with single residue spatial and millisecond time resolution by quantitative hydroxyl radical footprinting. Nat Protoc 3: 288-302. (Pubitemid 351266513)
-
(2008)
Nature Protocols
, vol.3
, Issue.2
, pp. 288-302
-
-
Shcherbakova, I.1
Brenowitz, M.2
-
60
-
-
33645819791
-
Fast Fenton footprinting: A laboratory-based method for the time-resolved analysis of DNA, RNA and proteins
-
doi: 10.1093/nar/gkl055
-
Shcherbakova I, Mitra S, Beer R, Brenowitz M. 2006. Fast Fenton footprinting: a laboratory-based method for the time-resolved analysis of DNA, RNA and proteins. Nucleic Acids Res 34: e48. doi: 10.1093/nar/gkl055.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Shcherbakova, I.1
Mitra, S.2
Beer, R.3
Brenowitz, M.4
-
61
-
-
25644452032
-
Evolutionary information for specifying a protein fold
-
DOI 10.1038/nature03991, PII N03991
-
Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R. 2005. Evolutionary information for specifying a protein fold. Nature 437: 512-518. (Pubitemid 41613543)
-
(2005)
Nature
, vol.437
, Issue.7058
, pp. 512-518
-
-
Socolich, M.1
Lockless, S.W.2
Russ, W.P.3
Lee, H.4
Gardner, K.H.5
Ranganathan, R.6
-
62
-
-
48249086517
-
Kinetic barriers and the role of topology in protein and RNA folding
-
Sosnick TR. 2008. Kinetic barriers and the role of topology in protein and RNA folding. Protein Sci 17: 1308-1318.
-
(2008)
Protein Sci
, vol.17
, pp. 1308-1318
-
-
Sosnick, T.R.1
-
63
-
-
4444363049
-
Reduced contact order and RNA folding rates
-
DOI 10.1016/j.jmb.2004.08.002, PII S0022283604009684
-
Sosnick TR, Pan T. 2004. Reduced contact order and RNA folding rates. J Mol Biol 342: 1359-1365. (Pubitemid 39208664)
-
(2004)
Journal of Molecular Biology
, vol.342
, Issue.5
, pp. 1359-1365
-
-
Sosnick, T.R.1
Pan, T.2
-
64
-
-
34547654293
-
Structural Metals in the Group I Intron: A Ribozyme with a Multiple Metal Ion Core
-
DOI 10.1016/j.jmb.2007.06.026, PII S0022283607008212
-
Stahley MR, Adams PL, Wang J, Strobel SA. 2007. Structural metals in the group I intron: a ribozyme with a multiple metal ion core. J Mol Biol 372: 89-102. (Pubitemid 47223219)
-
(2007)
Journal of Molecular Biology
, vol.372
, Issue.1
, pp. 89-102
-
-
Stahley, M.R.1
Adams, P.L.2
Wang, J.3
Strobel, S.A.4
-
65
-
-
6344242969
-
Principles of RNA compaction: Insights from the equilibrium folding pathway of the P4-P6 RNA domain in monovalent cations
-
DOI 10.1016/j.jmb.2004.08.080, PII S0022283604010800
-
Takamoto K, Das R, He Q, Doniach S, Brenowitz M, Herschlag D, Chance M. 2004. Principles of RNA compaction: insights from the equilibrium folding pathway of the P4-P6 RNA domain in monovalent cations. J Mol Biol 343: 1195-1206. (Pubitemid 39387820)
-
(2004)
Journal of Molecular Biology
, vol.343
, Issue.5
, pp. 1195-1206
-
-
Takamoto, K.1
Das, R.2
He, Q.3
Doniach, S.4
Brenowitz, M.5
Herschlag, D.6
Chance, M.R.7
-
66
-
-
0029805902
-
Activity and thermostability of the small self-splicing group I intron in the pre-tRNA(Ile) of the purple bacterium Azoarcus
-
Tanner M, Cech T. 1996. Activity and thermostability of the small self-splicing group I intron in the pre-tRNA(lle) of the purple bacterium Azoarcus. RNA 2: 74-83. (Pubitemid 26371313)
-
(1996)
RNA
, vol.2
, Issue.1
, pp. 74-83
-
-
Tanner, M.A.1
Cech, T.R.2
-
68
-
-
0035808384
-
Concerted kinetic folding of a multidomain ribozyme with a disrupted loop-receptor interaction
-
DOI 10.1006/jmbi.2000.4253
-
Treiber DK, Williamson JR. 2001b. Concerted kinetic folding of a multidomain ribozyme with a disrupted loop-receptor interaction. J Mol Biol 305: 11-21. (Pubitemid 32039741)
-
(2001)
Journal of Molecular Biology
, vol.305
, Issue.1
, pp. 11-21
-
-
Treiber, D.K.1
Williamson, J.R.2
-
69
-
-
0037466333
-
Multiple monovalent ion-dependent pathways for the folding of the L-21 Tetrahymena thermophila ribozyme
-
DOI 10.1016/S0022-2836(03)00247-X
-
Uchida T, Takamoto K, He Q, Chance M, Brenowitz M. 2003. Multiple monovalent ion-dependent pathways for the folding of the L-21 Tetrahymena thermophila ribozyme. J Mol Biol 328: 463-478. (Pubitemid 36407588)
-
(2003)
Journal of Molecular Biology
, vol.328
, Issue.2
, pp. 463-478
-
-
Uchida, T.1
Takamoto, K.2
He, Q.3
Chance, M.R.4
Brenowitz, M.5
-
70
-
-
30944458838
-
Atomic level architecture of group I introns revealed
-
DOI 10.1016/j.tibs.2005.11.008, PII S0968000405003403
-
Vicens Q, Cech TR. 2006. Atomic level architecture of group I introns revealed. Trends Biochem Sci 31: 41-51. (Pubitemid 43117542)
-
(2006)
Trends in Biochemical Sciences
, vol.31
, Issue.1
, pp. 41-51
-
-
Vicens, Q.1
Cech, T.R.2
-
71
-
-
52949123649
-
Toward predicting self-splicing and protein-facilitated splicing of group I introns
-
Vicens Q, Paukstelis PJ, Westhof E, Lambowitz AM, Cech TR. 2008. Toward predicting self-splicing and protein-facilitated splicing of group I introns. RNA 14: 2013-2029.
-
(2008)
RNA
, vol.14
, pp. 2013-2029
-
-
Vicens, Q.1
Paukstelis, P.J.2
Westhof, E.3
Lambowitz, A.M.4
Cech, T.R.5
-
72
-
-
6044241907
-
Structural biology. Evolution of RNA architecture
-
Westhof E, Massire C. 2004. Structural biology. Evolution of RNA architecture. Science 306: 62-63.
-
(2004)
Science
, vol.306
, pp. 62-63
-
-
Westhof, E.1
Massire, C.2
-
73
-
-
20444496805
-
Structure and assembly of group I introns
-
DOI 10.1016/j.sbi.2005.05.007, PII S0959440X05000916
-
Woodson SA. 2005. Structure and assembly of group I introns. Curr Opin Struct Biol 15: 324-330. (Pubitemid 40826452)
-
(2005)
Current Opinion in Structural Biology
, vol.15
, Issue.3 SPEC. ISS
, pp. 324-330
-
-
Woodson, S.A.1
-
74
-
-
0027991626
-
Kinetic intermediates in RNA folding
-
Zarrinkar P, Williamson J. 1994. Kinetic intermediates in RNA folding. Science 265: 918-924. (Pubitemid 24281488)
-
(1994)
Science
, vol.265
, Issue.5174
, pp. 918-924
-
-
Zarrinkar, P.P.1
Williamson, J.R.2
-
75
-
-
0024285808
-
Sequence-specific endoribonuclease activity of the Tetrahymena ribozyme: Enhanced cleavage of certain oligonucleotide substrates that form mismatched ribozyme-substrate complexes
-
Zaug AJ, Grosshans CA, Cech TR. 1988. Sequence-specific endoribonuclease activity of the Tetrahymena ribozyme: enhanced cleavage of certain oligonucleotide substrates that form mismatched ribozyme-substrate complexes. Biochemistry 27: 8924-8931.
-
(1988)
Biochemistry
, vol.27
, pp. 8924-8931
-
-
Zaug, A.J.1
Grosshans, C.A.2
Cech, T.R.3
|