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Items: 1 to 20 of 142

1.

Tuning a riboswitch response through structural extension of a pseudoknot.

Soulière MF, Altman RB, Schwarz V, Haller A, Blanchard SC, Micura R.

Proc Natl Acad Sci U S A. 2013 Aug 27;110(35):E3256-64. doi: 10.1073/pnas.1304585110. Epub 2013 Aug 12.

2.

Pseudoknot preorganization of the preQ1 class I riboswitch.

Santner T, Rieder U, Kreutz C, Micura R.

J Am Chem Soc. 2012 Jul 25;134(29):11928-31. doi: 10.1021/ja3049964. Epub 2012 Jul 9.

PMID:
22775200
3.

Structural analysis of a class III preQ1 riboswitch reveals an aptamer distant from a ribosome-binding site regulated by fast dynamics.

Liberman JA, Suddala KC, Aytenfisu A, Chan D, Belashov IA, Salim M, Mathews DH, Spitale RC, Walter NG, Wedekind JE.

Proc Natl Acad Sci U S A. 2015 Jul 7;112(27):E3485-94. doi: 10.1073/pnas.1503955112. Epub 2015 Jun 23.

4.

The dynamic nature of RNA as key to understanding riboswitch mechanisms.

Haller A, Soulière MF, Micura R.

Acc Chem Res. 2011 Dec 20;44(12):1339-48. doi: 10.1021/ar200035g. Epub 2011 Jun 16.

PMID:
21678902
5.

Molecular mechanism for preQ1-II riboswitch function revealed by molecular dynamics.

Aytenfisu AH, Liberman JA, Wedekind JE, Mathews DH.

RNA. 2015 Nov;21(11):1898-907. doi: 10.1261/rna.051367.115. Epub 2015 Sep 14.

6.

Conformational capture of the SAM-II riboswitch.

Haller A, Rieder U, Aigner M, Blanchard SC, Micura R.

Nat Chem Biol. 2011 Jun;7(6):393-400. doi: 10.1038/nchembio.562. Epub 2011 May 1.

PMID:
21532598
7.

Structural determinants for ligand capture by a class II preQ1 riboswitch.

Kang M, Eichhorn CD, Feigon J.

Proc Natl Acad Sci U S A. 2014 Feb 11;111(6):E663-71. doi: 10.1073/pnas.1400126111. Epub 2014 Jan 27.

8.

Folding of the SAM-I riboswitch: a tale with a twist.

Eschbach SH, St-Pierre P, Penedo JC, Lafontaine DA.

RNA Biol. 2012 May;9(5):535-41. doi: 10.4161/rna.19648. Epub 2012 Feb 21.

PMID:
22336759
9.

Single-Molecule Approaches for the Characterization of Riboswitch Folding Mechanisms.

Boudreault J, Perez-Gonzalez DC, Penedo JC, Lafontaine DA.

Methods Mol Biol. 2015;1334:101-7. doi: 10.1007/978-1-4939-2877-4_6.

PMID:
26404145
10.

Structure of a class II preQ1 riboswitch reveals ligand recognition by a new fold.

Liberman JA, Salim M, Krucinska J, Wedekind JE.

Nat Chem Biol. 2013 Jun;9(6):353-5. doi: 10.1038/nchembio.1231. Epub 2013 Apr 14.

11.

Single transcriptional and translational preQ1 riboswitches adopt similar pre-folded ensembles that follow distinct folding pathways into the same ligand-bound structure.

Suddala KC, Rinaldi AJ, Feng J, Mustoe AM, Eichhorn CD, Liberman JA, Wedekind JE, Al-Hashimi HM, Brooks CL 3rd, Walter NG.

Nucleic Acids Res. 2013 Dec;41(22):10462-75. doi: 10.1093/nar/gkt798. Epub 2013 Sep 3.

12.

Cooperative and directional folding of the preQ1 riboswitch aptamer domain.

Feng J, Walter NG, Brooks CL 3rd.

J Am Chem Soc. 2011 Mar 30;133(12):4196-9. doi: 10.1021/ja110411m. Epub 2011 Mar 4.

13.

Molecular basis of RNA-mediated gene regulation on the adenine riboswitch by single-molecule approaches.

Lemay JF, Penedo JC, Mulhbacher J, Lafontaine DA.

Methods Mol Biol. 2009;540:65-76. doi: 10.1007/978-1-59745-558-9_6.

PMID:
19381553
14.

Mg(2+) shifts ligand-mediated folding of a riboswitch from induced-fit to conformational selection.

Suddala KC, Wang J, Hou Q, Walter NG.

J Am Chem Soc. 2015 Nov 11;137(44):14075-83. doi: 10.1021/jacs.5b09740. Epub 2015 Oct 29.

15.

Role of lysine binding residues in the global folding of the lysC riboswitch.

Smith-Peter E, Lamontagne AM, Lafontaine DA.

RNA Biol. 2015;12(12):1372-82. doi: 10.1080/15476286.2015.1094603.

16.

Folding of SAM-II riboswitch explored by replica-exchange molecular dynamics simulation.

Xue X, Yongjun W, Zhihong L.

J Theor Biol. 2015 Jan 21;365:265-9. doi: 10.1016/j.jtbi.2014.10.022. Epub 2014 Oct 31.

PMID:
25451761
17.

Multiple conformations of SAM-II riboswitch detected with SAXS and NMR spectroscopy.

Chen B, Zuo X, Wang YX, Dayie TK.

Nucleic Acids Res. 2012 Apr;40(7):3117-30. doi: 10.1093/nar/gkr1154. Epub 2011 Dec 1.

18.

Folding and ligand recognition of the TPP riboswitch aptamer at single-molecule resolution.

Haller A, Altman RB, Soulière MF, Blanchard SC, Micura R.

Proc Natl Acad Sci U S A. 2013 Mar 12;110(11):4188-93. doi: 10.1073/pnas.1218062110. Epub 2013 Feb 25.

19.

Influence of ground-state structure and Mg2+ binding on folding kinetics of the guanine-sensing riboswitch aptamer domain.

Buck J, Wacker A, Warkentin E, Wöhnert J, Wirmer-Bartoschek J, Schwalbe H.

Nucleic Acids Res. 2011 Dec;39(22):9768-78. doi: 10.1093/nar/gkr664. Epub 2011 Sep 2.

20.

Using sm-FRET and denaturants to reveal folding landscapes.

Shaw E, St-Pierre P, McCluskey K, Lafontaine DA, Penedo JC.

Methods Enzymol. 2014;549:313-41. doi: 10.1016/B978-0-12-801122-5.00014-3. Review.

PMID:
25432755

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