-
2
-
-
66549094626
-
The long and the short of riboswitches
-
Serganov A, (2009) The long and the short of riboswitches. Curr Opin Struct Biol 19: 251-259.
-
(2009)
Curr Opin Struct Biol
, vol.19
, pp. 251-259
-
-
Serganov, A.1
-
3
-
-
20444478991
-
Riboswitches as versatile gene control elements
-
Tucker BJ, Breaker RR, (2005) Riboswitches as versatile gene control elements. Curr Opin Struct Biol 15: 342-348.
-
(2005)
Curr Opin Struct Biol
, vol.15
, pp. 342-348
-
-
Tucker, B.J.1
Breaker, R.R.2
-
4
-
-
37849045636
-
Riboswitch control of gene expression in plants by splicing and alternative 3′ end processing of mRNAs
-
Wachter A, Tunc-Ozdemir M, Grove BC, Green PJ, Shintani DK, et al. (2007) Riboswitch control of gene expression in plants by splicing and alternative 3′ end processing of mRNAs. Plant Cell 19: 3437-3450.
-
(2007)
Plant Cell
, vol.19
, pp. 3437-3450
-
-
Wachter, A.1
Tunc-Ozdemir, M.2
Grove, B.C.3
Green, P.J.4
Shintani, D.K.5
-
5
-
-
58049217240
-
Riboswitch RNAs: using RNA to sense cellular metabolism
-
Henkin TM, (2008) Riboswitch RNAs: using RNA to sense cellular metabolism. Genes Dev 22: 3383-3390.
-
(2008)
Genes Dev
, vol.22
, pp. 3383-3390
-
-
Henkin, T.M.1
-
6
-
-
27144527479
-
Regulation of bacterial gene expression by riboswitches
-
Winkler WC, Breaker RR, (2005) Regulation of bacterial gene expression by riboswitches. Annu Rev Microbiol 59: 487-517.
-
(2005)
Annu Rev Microbiol
, vol.59
, pp. 487-517
-
-
Winkler, W.C.1
Breaker, R.R.2
-
7
-
-
1642586299
-
Control of gene expression by a natural metabolite-responsive ribozyme
-
Winkler WC, Nahvi A, Roth A, Collins JA, Breaker RR, (2004) Control of gene expression by a natural metabolite-responsive ribozyme. Nature 428: 281-286.
-
(2004)
Nature
, vol.428
, pp. 281-286
-
-
Winkler, W.C.1
Nahvi, A.2
Roth, A.3
Collins, J.A.4
Breaker, R.R.5
-
8
-
-
38049025288
-
Chemical basis of glycine riboswitch cooperativity
-
Kwon M, Strobel SA, (2008) Chemical basis of glycine riboswitch cooperativity. RNA 14: 25-34.
-
(2008)
RNA
, vol.14
, pp. 25-34
-
-
Kwon, M.1
Strobel, S.A.2
-
9
-
-
5044234799
-
A glycine-dependent riboswitch that uses cooperative binding to control gene expression
-
Mandal M, Lee M, Barrick JE, Weinberg Z, Emilsson GM, et al. (2004) A glycine-dependent riboswitch that uses cooperative binding to control gene expression. Science 306: 275-279.
-
(2004)
Science
, vol.306
, pp. 275-279
-
-
Mandal, M.1
Lee, M.2
Barrick, J.E.3
Weinberg, Z.4
Emilsson, G.M.5
-
10
-
-
72149126118
-
A switch in time: detailing the life of a riboswitch
-
Garst AD, Batey RT, (2009) A switch in time: detailing the life of a riboswitch. Biochim Biophys Acta 1789: 584-591.
-
(2009)
Biochim Biophys Acta
, vol.1789
, pp. 584-591
-
-
Garst, A.D.1
Batey, R.T.2
-
11
-
-
34548454557
-
Structural features of metabolite-sensing riboswitches
-
Wakeman CA, Winkler WC, Dann CE, (2007) Structural features of metabolite-sensing riboswitches. Trends Biochem Sci 32: 415-424.
-
(2007)
Trends Biochem Sci
, vol.32
, pp. 415-424
-
-
Wakeman, C.A.1
Winkler, W.C.2
Dann, C.E.3
-
12
-
-
36248982074
-
Mutational analysis of the purine riboswitch aptamer domain
-
Gilbert SD, Love CE, Edwards AL, Batey RT, (2007) Mutational analysis of the purine riboswitch aptamer domain. Biochemistry 46: 13297-13309.
-
(2007)
Biochemistry
, vol.46
, pp. 13297-13309
-
-
Gilbert, S.D.1
Love, C.E.2
Edwards, A.L.3
Batey, R.T.4
-
13
-
-
38849197858
-
Structure of the SAM-II riboswitch bound to S-adenosylmethionine
-
Gilbert SD, Rambo RP, Van Tyne D, Batey RT, (2008) Structure of the SAM-II riboswitch bound to S-adenosylmethionine. Nat Struct Mol Biol 15: 177-182.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 177-182
-
-
Gilbert, S.D.1
Rambo, R.P.2
Van Tyne, D.3
Batey, R.T.4
-
14
-
-
0026350074
-
Arginine-mediated RNA recognition: the arginine fork
-
Calnan BJ, Tidor B, Biancalana S, Hudson D, Frankel AD, (1991) Arginine-mediated RNA recognition: the arginine fork. Science 252: 1167-1171.
-
(1991)
Science
, vol.252
, pp. 1167-1171
-
-
Calnan, B.J.1
Tidor, B.2
Biancalana, S.3
Hudson, D.4
Frankel, A.D.5
-
15
-
-
0031552350
-
Solution structure of the HIV-2 TAR-argininamide complex
-
Brodsky AS, Williamson JR, (1997) Solution structure of the HIV-2 TAR-argininamide complex. J Mol Biol 267: 624-639.
-
(1997)
J Mol Biol
, vol.267
, pp. 624-639
-
-
Brodsky, A.S.1
Williamson, J.R.2
-
16
-
-
0029613238
-
Molecular recognition in the bovine immunodeficiency virus Tat peptide-TAR RNA complex
-
Ye X, Kumar RA, Patel DJ, (1995) Molecular recognition in the bovine immunodeficiency virus Tat peptide-TAR RNA complex. Chem Biol 2: 827-840.
-
(1995)
Chem Biol
, vol.2
, pp. 827-840
-
-
Ye, X.1
Kumar, R.A.2
Patel, D.J.3
-
17
-
-
0030475417
-
Deep penetration of an alpha-helix into a widened RNA major groove in the HIV-1 rev peptide-RNA aptamer complex
-
Ye X, Gorin A, Ellington AD, Patel DJ, (1996) Deep penetration of an alpha-helix into a widened RNA major groove in the HIV-1 rev peptide-RNA aptamer complex. Nat Struct Biol 3: 1026-1033.
-
(1996)
Nat Struct Biol
, vol.3
, pp. 1026-1033
-
-
Ye, X.1
Gorin, A.2
Ellington, A.D.3
Patel, D.J.4
-
18
-
-
0033954256
-
The Protein Data Bank
-
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, et al. (2000) The Protein Data Bank. Nucleic Acids Res 28: 235-242.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
-
19
-
-
10644250950
-
Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs
-
Serganov A, Yuan YR, Pikovskaya O, Polonskaia A, Malinina L, et al. (2004) Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs. Chem Biol 11: 1729-1741.
-
(2004)
Chem Biol
, vol.11
, pp. 1729-1741
-
-
Serganov, A.1
Yuan, Y.R.2
Pikovskaya, O.3
Polonskaia, A.4
Malinina, L.5
-
20
-
-
33745628336
-
Structure of the S-adenosylmethionine riboswitch regulatory mRNA element
-
Montange RK, Batey RT, (2006) Structure of the S-adenosylmethionine riboswitch regulatory mRNA element. Nature 441: 1172-1175.
-
(2006)
Nature
, vol.441
, pp. 1172-1175
-
-
Montange, R.K.1
Batey, R.T.2
-
21
-
-
53549089576
-
Crystal structures of the SAM-III/S(MK) riboswitch reveal the SAM-dependent translation inhibition mechanism
-
Lu C, Smith AM, Fuchs RT, Ding F, Rajashankar K, et al. (2008) Crystal structures of the SAM-III/S(MK) riboswitch reveal the SAM-dependent translation inhibition mechanism. Nat Struct Mol Biol 15: 1076-1083.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 1076-1083
-
-
Lu, C.1
Smith, A.M.2
Fuchs, R.T.3
Ding, F.4
Rajashankar, K.5
-
22
-
-
62049086072
-
Cocrystal structure of a class I preQ1 riboswitch reveals a pseudoknot recognizing an essential hypermodified nucleobase
-
Klein DJ, Edwards TE, Ferre-D'Amare AR, (2009) Cocrystal structure of a class I preQ1 riboswitch reveals a pseudoknot recognizing an essential hypermodified nucleobase. Nat Struct Mol Biol 16: 343-344.
-
(2009)
Nat Struct Mol Biol
, vol.16
, pp. 343-344
-
-
Klein, D.J.1
Edwards, T.E.2
Ferre-D'Amare, A.R.3
-
23
-
-
55249114833
-
Structural insights into amino acid binding and gene control by a lysine riboswitch
-
Serganov A, Huang L, Patel DJ, (2008) Structural insights into amino acid binding and gene control by a lysine riboswitch. Nature 455: 1263-1267.
-
(2008)
Nature
, vol.455
, pp. 1263-1267
-
-
Serganov, A.1
Huang, L.2
Patel, D.J.3
-
24
-
-
62249156218
-
Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch
-
Serganov A, Huang L, Patel DJ, (2009) Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch. Nature 458: 233-237.
-
(2009)
Nature
, vol.458
, pp. 233-237
-
-
Serganov, A.1
Huang, L.2
Patel, D.J.3
-
25
-
-
33745635350
-
Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch
-
Serganov A, Polonskaia A, Phan AT, Breaker RR, Patel DJ, (2006) Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch. Nature 441: 1167-1171.
-
(2006)
Nature
, vol.441
, pp. 1167-1171
-
-
Serganov, A.1
Polonskaia, A.2
Phan, A.T.3
Breaker, R.R.4
Patel, D.J.5
-
26
-
-
79952444960
-
Insights into metalloregulation by M-box riboswitch RNAs via structural analysis of manganese-bound complexes
-
Ramesh A, Wakeman CA, Winkler WC, (2011) Insights into metalloregulation by M-box riboswitch RNAs via structural analysis of manganese-bound complexes. J Mol Biol 407: 556-570.
-
(2011)
J Mol Biol
, vol.407
, pp. 556-570
-
-
Ramesh, A.1
Wakeman, C.A.2
Winkler, W.C.3
-
27
-
-
77956021842
-
Structural and biochemical determinants of ligand binding by the c-di-GMP riboswitch
-
Smith KD, Lipchock SV, Livingston AL, Shanahan CA, Strobel SA, (2010) Structural and biochemical determinants of ligand binding by the c-di-GMP riboswitch. Biochemistry 49: 7351-7359.
-
(2010)
Biochemistry
, vol.49
, pp. 7351-7359
-
-
Smith, K.D.1
Lipchock, S.V.2
Livingston, A.L.3
Shanahan, C.A.4
Strobel, S.A.5
-
28
-
-
84864451579
-
NASSAM: a server to search for and annotate tertiary interactions and motifs in three-dimensional structures of complex RNA molecules
-
Hamdani HY, Appasamy SD, Willett P, Artymiuk PJ, Firdaus-Raih M (2012) NASSAM: a server to search for and annotate tertiary interactions and motifs in three-dimensional structures of complex RNA molecules. Nucleic Acids Res.
-
(2012)
Nucleic Acids Res
-
-
Hamdani, H.Y.1
Appasamy, S.D.2
Willett, P.3
Artymiuk, P.J.4
Firdaus-Raih, M.5
-
30
-
-
0035942248
-
RNA tertiary interactions in the large ribosomal subunit: the A-minor motif
-
Nissen P, Ippolito JA, Ban N, Moore PB, Steitz TA, (2001) RNA tertiary interactions in the large ribosomal subunit: the A-minor motif. Proc Natl Acad Sci U S A 98: 4899-4903.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, pp. 4899-4903
-
-
Nissen, P.1
Ippolito, J.A.2
Ban, N.3
Moore, P.B.4
Steitz, T.A.5
-
31
-
-
84857838609
-
Comprehensive survey and geometric classification of base triples in RNA structures
-
Abu Almakarem AS, Petrov AI, Stombaugh J, Zirbel CL, Leontis NB, (2012) Comprehensive survey and geometric classification of base triples in RNA structures. Nucleic Acids Res 40: 1407-1423.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 1407-1423
-
-
Abu Almakarem, A.S.1
Petrov, A.I.2
Stombaugh, J.3
Zirbel, C.L.4
Leontis, N.B.5
-
32
-
-
0036314898
-
Sequence and structural conservation in RNA ribose zippers
-
Tamura M, Holbrook SR, (2002) Sequence and structural conservation in RNA ribose zippers. J Mol Biol 320: 455-474.
-
(2002)
J Mol Biol
, vol.320
, pp. 455-474
-
-
Tamura, M.1
Holbrook, S.R.2
-
33
-
-
0035423087
-
The kink-turn: a new RNA secondary structure motif
-
Klein DJ, Schmeing TM, Moore PB, Steitz TA, (2001) The kink-turn: a new RNA secondary structure motif. EMBO J 20: 4214-4221.
-
(2001)
EMBO J
, vol.20
, pp. 4214-4221
-
-
Klein, D.J.1
Schmeing, T.M.2
Moore, P.B.3
Steitz, T.A.4
-
34
-
-
0028168585
-
Characterization of a "kissing" hairpin complex derived from the human immunodeficiency virus genome
-
Chang KY, Tinoco I Jr, (1994) Characterization of a "kissing" hairpin complex derived from the human immunodeficiency virus genome. Proc Natl Acad Sci U S A 91: 8705-8709.
-
(1994)
Proc Natl Acad Sci U S A
, vol.91
, pp. 8705-8709
-
-
Chang, K.Y.1
Tinoco Jr., I.2
-
35
-
-
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
-
36
-
-
0022423219
-
A new principle of RNA folding based on pseudoknotting
-
Pleij CW, Rietveld K, Bosch L, (1985) A new principle of RNA folding based on pseudoknotting. Nucleic Acids Res 13: 1717-1731.
-
(1985)
Nucleic Acids Res
, vol.13
, pp. 1717-1731
-
-
Pleij, C.W.1
Rietveld, K.2
Bosch, L.3
-
37
-
-
0043123152
-
Tools for the automatic identification and classification of RNA base pairs
-
Yang H, Jossinet F, Leontis N, Chen L, Westbrook J, et al. (2003) Tools for the automatic identification and classification of RNA base pairs. Nucleic Acids Res 31: 3450-3460.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3450-3460
-
-
Yang, H.1
Jossinet, F.2
Leontis, N.3
Chen, L.4
Westbrook, J.5
-
38
-
-
58149191274
-
Rfam: updates to the RNA families database
-
Gardner PP, Daub J, Tate JG, Nawrocki EP, Kolbe DL, et al. (2009) Rfam: updates to the RNA families database. Nucleic Acids Res 37: D136-140.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Gardner, P.P.1
Daub, J.2
Tate, J.G.3
Nawrocki, E.P.4
Kolbe, D.L.5
-
40
-
-
65449188232
-
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
-
Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ, (2009) Jalview Version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics 25: 1189-1191.
-
(2009)
Bioinformatics
, vol.25
, pp. 1189-1191
-
-
Waterhouse, A.M.1
Procter, J.B.2
Martin, D.M.3
Clamp, M.4
Barton, G.J.5
-
41
-
-
4444221565
-
UCSF Chimera-a visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, et al. (2004) UCSF Chimera-a visualization system for exploratory research and analysis. J Comput Chem 25: 1605-1612.
-
(2004)
J Comput Chem
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
-
42
-
-
66449089224
-
The structural basis for recognition of the PreQ0 metabolite by an unusually small riboswitch aptamer domain
-
Spitale RC, Torelli AT, Krucinska J, Bandarian V, Wedekind JE, (2009) The structural basis for recognition of the PreQ0 metabolite by an unusually small riboswitch aptamer domain. J Biol Chem 284: 11012-11016.
-
(2009)
J Biol Chem
, vol.284
, pp. 11012-11016
-
-
Spitale, R.C.1
Torelli, A.T.2
Krucinska, J.3
Bandarian, V.4
Wedekind, J.E.5
-
43
-
-
33744469562
-
Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand
-
Thore S, Leibundgut M, Ban N, (2006) Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand. Science 312: 1208-1211.
-
(2006)
Science
, vol.312
, pp. 1208-1211
-
-
Thore, S.1
Leibundgut, M.2
Ban, N.3
-
44
-
-
40249103230
-
Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors
-
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.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 1138-1152
-
-
Geary, C.1
Baudrey, S.2
Jaeger, L.3
-
45
-
-
9244225713
-
Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine
-
Batey RT, Gilbert SD, Montange RK, (2004) Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine. Nature 432: 411-415.
-
(2004)
Nature
, vol.432
, pp. 411-415
-
-
Batey, R.T.1
Gilbert, S.D.2
Montange, R.K.3
-
46
-
-
33747367748
-
Riboswitches: fold and function
-
Gilbert SD, Batey RT, (2006) Riboswitches: fold and function. Chem Biol 13: 805-807.
-
(2006)
Chem Biol
, vol.13
, pp. 805-807
-
-
Gilbert, S.D.1
Batey, R.T.2
-
47
-
-
34548726217
-
Ligand recognition determinants of guanine riboswitches
-
Mulhbacher J, Lafontaine DA, (2007) Ligand recognition determinants of guanine riboswitches. Nucleic Acids Res 35: 5568-5580.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 5568-5580
-
-
Mulhbacher, J.1
Lafontaine, D.A.2
-
48
-
-
0038210214
-
Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria
-
Mandal M, Boese B, Barrick JE, Winkler WC, Breaker RR, (2003) Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell 113: 577-586.
-
(2003)
Cell
, vol.113
, pp. 577-586
-
-
Mandal, M.1
Boese, B.2
Barrick, J.E.3
Winkler, W.C.4
Breaker, R.R.5
-
49
-
-
23744510923
-
A tertiary structural element in S box leader RNAs is required for S-adenosylmethionine-directed transcription termination
-
McDaniel BA, Grundy FJ, Henkin TM, (2005) A tertiary structural element in S box leader RNAs is required for S-adenosylmethionine-directed transcription termination. Mol Microbiol 57: 1008-1021.
-
(2005)
Mol Microbiol
, vol.57
, pp. 1008-1021
-
-
McDaniel, B.A.1
Grundy, F.J.2
Henkin, T.M.3
-
50
-
-
2342475659
-
Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA
-
Moore T, Zhang Y, Fenley MO, Li H, (2004) Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA. Structure 12: 807-818.
-
(2004)
Structure
, vol.12
, pp. 807-818
-
-
Moore, T.1
Zhang, Y.2
Fenley, M.O.3
Li, H.4
-
51
-
-
46349083026
-
The distributions, mechanisms, and structures of metabolite-binding riboswitches
-
Barrick JE, Breaker RR, (2007) The distributions, mechanisms, and structures of metabolite-binding riboswitches. Genome Biol 8: R239.
-
(2007)
Genome Biol
, vol.8
-
-
Barrick, J.E.1
Breaker, R.R.2
-
52
-
-
42149091618
-
Riboswitches that sense S-adenosylmethionine and S-adenosylhomocysteine
-
Wang JX, Breaker RR, (2008) Riboswitches that sense S-adenosylmethionine and S-adenosylhomocysteine. Biochem Cell Biol 86: 157-168.
-
(2008)
Biochem Cell Biol
, vol.86
, pp. 157-168
-
-
Wang, J.X.1
Breaker, R.R.2
-
53
-
-
22744455135
-
Pseudoknots: RNA structures with diverse functions
-
Staple DW, Butcher SE, (2005) Pseudoknots: RNA structures with diverse functions. PLoS Biol 3: e213.
-
(2005)
PLoS Biol
, vol.3
-
-
Staple, D.W.1
Butcher, S.E.2
-
54
-
-
32044442926
-
Evidence for a second class of S-adenosylmethionine riboswitches and other regulatory RNA motifs in alpha-proteobacteria
-
Corbino KA, Barrick JE, Lim J, Welz R, Tucker BJ, et al. (2005) Evidence for a second class of S-adenosylmethionine riboswitches and other regulatory RNA motifs in alpha-proteobacteria. Genome Biol 6: R70.
-
(2005)
Genome Biol
, vol.6
-
-
Corbino, K.A.1
Barrick, J.E.2
Lim, J.3
Welz, R.4
Tucker, B.J.5
-
55
-
-
34247181095
-
A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain
-
Roth A, Winkler WC, Regulski EE, Lee BW, Lim J, et al. (2007) A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain. Nat Struct Mol Biol 14: 308-317.
-
(2007)
Nat Struct Mol Biol
, vol.14
, pp. 308-317
-
-
Roth, A.1
Winkler, W.C.2
Regulski, E.E.3
Lee, B.W.4
Lim, J.5
-
56
-
-
34447528960
-
A loop loop interaction and a K-turn motif located in the lysine aptamer domain are important for the riboswitch gene regulation control
-
Blouin S, Lafontaine DA, (2007) A loop loop interaction and a K-turn motif located in the lysine aptamer domain are important for the riboswitch gene regulation control. RNA 13: 1256-1267.
-
(2007)
RNA
, vol.13
, pp. 1256-1267
-
-
Blouin, S.1
Lafontaine, D.A.2
-
57
-
-
79955604950
-
Folding of the lysine riboswitch: importance of peripheral elements for transcriptional regulation
-
Blouin S, Chinnappan R, Lafontaine DA, (2011) Folding of the lysine riboswitch: importance of peripheral elements for transcriptional regulation. Nucleic Acids Res 39: 3373-3387.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 3373-3387
-
-
Blouin, S.1
Chinnappan, R.2
Lafontaine, D.A.3
-
58
-
-
10644226734
-
Kissing-loop interaction in the 3′ end of the hepatitis C virus genome essential for RNA replication
-
Friebe P, Boudet J, Simorre JP, Bartenschlager R, (2005) Kissing-loop interaction in the 3′ end of the hepatitis C virus genome essential for RNA replication. J Virol 79: 380-392.
-
(2005)
J Virol
, vol.79
, pp. 380-392
-
-
Friebe, P.1
Boudet, J.2
Simorre, J.P.3
Bartenschlager, R.4
-
59
-
-
0038475947
-
On the occurrence of the T-loop RNA folding motif in large RNA molecules
-
Krasilnikov AS, Mondragon A, (2003) On the occurrence of the T-loop RNA folding motif in large RNA molecules. RNA 9: 640-643.
-
(2003)
RNA
, vol.9
, pp. 640-643
-
-
Krasilnikov, A.S.1
Mondragon, A.2
-
60
-
-
0036717041
-
Frequent occurrence of the T-loop RNA folding motif in ribosomal RNAs
-
Nagaswamy U, Fox GE, (2002) Frequent occurrence of the T-loop RNA folding motif in ribosomal RNAs. RNA 8: 1112-1119.
-
(2002)
RNA
, vol.8
, pp. 1112-1119
-
-
Nagaswamy, U.1
Fox, G.E.2
-
61
-
-
33847613460
-
The THI-box riboswitch, or how RNA binds thiamin pyrophosphate
-
Miranda-Rios J, (2007) The THI-box riboswitch, or how RNA binds thiamin pyrophosphate. Structure 15: 259-265.
-
(2007)
Structure
, vol.15
, pp. 259-265
-
-
Miranda-Rios, J.1
-
62
-
-
2342511433
-
New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control
-
Barrick JE, Corbino KA, Winkler WC, Nahvi A, Mandal M, et al. (2004) New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control. Proc Natl Acad Sci U S A 101: 6421-6426.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 6421-6426
-
-
Barrick, J.E.1
Corbino, K.A.2
Winkler, W.C.3
Nahvi, A.4
Mandal, M.5
-
63
-
-
34548253368
-
Structure and mechanism of a metal-sensing regulatory RNA
-
Dann CE, (2007) Structure and mechanism of a metal-sensing regulatory RNA. Cell 130: 878-892.
-
(2007)
Cell
, vol.130
, pp. 878-892
-
-
Dann, C.E.1
-
64
-
-
0029864853
-
Molecular recognition in the FMN-RNA aptamer complex
-
Fan P, Suri AK, Fiala R, Live D, Patel DJ, (1996) Molecular recognition in the FMN-RNA aptamer complex. J Mol Biol 258: 480-500.
-
(1996)
J Mol Biol
, vol.258
, pp. 480-500
-
-
Fan, P.1
Suri, A.K.2
Fiala, R.3
Live, D.4
Patel, D.J.5
-
65
-
-
0030752211
-
Interlocking structural motifs mediate molecular discrimination by a theophylline-binding RNA
-
Zimmermann GR, Jenison RD, Wick CL, Simorre JP, Pardi A, (1997) Interlocking structural motifs mediate molecular discrimination by a theophylline-binding RNA. Nat Struct Biol 4: 644-649.
-
(1997)
Nat Struct Biol
, vol.4
, pp. 644-649
-
-
Zimmermann, G.R.1
Jenison, R.D.2
Wick, C.L.3
Simorre, J.P.4
Pardi, A.5
-
66
-
-
0346457132
-
Recognition of planar and nonplanar ligands in the malachite green-RNA aptamer complex
-
Flinders J, DeFina SC, Brackett DM, Baugh C, Wilson C, et al. (2004) Recognition of planar and nonplanar ligands in the malachite green-RNA aptamer complex. Chembiochem 5: 62-72.
-
(2004)
Chembiochem
, vol.5
, pp. 62-72
-
-
Flinders, J.1
DeFina, S.C.2
Brackett, D.M.3
Baugh, C.4
Wilson, C.5
-
67
-
-
8644229237
-
Structure of the Tetrahymena ribozyme: base triple sandwich and metal ion at the active site
-
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.
-
(2004)
Mol Cell
, vol.16
, pp. 351-362
-
-
Guo, F.1
Gooding, A.R.2
Cech, T.R.3
-
68
-
-
57049151833
-
Annotation of tertiary interactions in RNA structures reveals variations and correlations
-
Xin Y, Laing C, Leontis NB, Schlick T, (2008) Annotation of tertiary interactions in RNA structures reveals variations and correlations. RNA 14: 2465-2477.
-
(2008)
RNA
, vol.14
, pp. 2465-2477
-
-
Xin, Y.1
Laing, C.2
Leontis, N.B.3
Schlick, T.4
-
69
-
-
52949147108
-
The GANC tetraloop: a novel motif in the group IIC intron structure
-
Keating KS, Toor N, Pyle AM, (2008) The GANC tetraloop: a novel motif in the group IIC intron structure. J Mol Biol 383: 475-481.
-
(2008)
J Mol Biol
, vol.383
, pp. 475-481
-
-
Keating, K.S.1
Toor, N.2
Pyle, A.M.3
-
70
-
-
84255189090
-
The molecular interactions that stabilize RNA tertiary structure: RNA motifs, patterns, and networks
-
Butcher SE, Pyle AM, (2011) The molecular interactions that stabilize RNA tertiary structure: RNA motifs, patterns, and networks. Acc Chem Res 44: 1302-1311.
-
(2011)
Acc Chem Res
, vol.44
, pp. 1302-1311
-
-
Butcher, S.E.1
Pyle, A.M.2
-
71
-
-
0029796982
-
RNA tertiary structure mediation by adenosine platforms
-
Cate JH, Gooding AR, Podell E, Zhou K, Golden BL, et al. (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
-
72
-
-
14344256626
-
Structures of two RNA octamers containing tandem G.A base pairs
-
Jang SB, Baeyens K, Jeong MS, SantaLucia J Jr, Turner D, et al. (2004) Structures of two RNA octamers containing tandem G.A base pairs. Acta Crystallogr D Biol Crystallogr 60: 829-835.
-
(2004)
Acta Crystallogr D Biol Crystallogr
, vol.60
, pp. 829-835
-
-
Jang, S.B.1
Baeyens, K.2
Jeong, M.S.3
SantaLucia Jr., J.4
Turner, D.5
|