242 related articles for article (PubMed ID: 21361309)
1. Effects of Mg2+ on the free energy landscape for folding a purine riboswitch RNA.
Leipply D; Draper DE
Biochemistry; 2011 Apr; 50(14):2790-9. PubMed ID: 21361309
[TBL] [Abstract][Full Text] [Related]
2. Importance of partially unfolded conformations for Mg(2+)-induced folding of RNA tertiary structure: structural models and free energies of Mg2+ interactions.
Grilley D; Misra V; Caliskan G; Draper DE
Biochemistry; 2007 Sep; 46(36):10266-78. PubMed ID: 17705557
[TBL] [Abstract][Full Text] [Related]
3. Mg2+-RNA interaction free energies and their relationship to the folding of RNA tertiary structures.
Grilley D; Soto AM; Draper DE
Proc Natl Acad Sci U S A; 2006 Sep; 103(38):14003-8. PubMed ID: 16966612
[TBL] [Abstract][Full Text] [Related]
4. Tertiary structure of an RNA pseudoknot is stabilized by "diffuse" Mg2+ ions.
Soto AM; Misra V; Draper DE
Biochemistry; 2007 Mar; 46(11):2973-83. PubMed ID: 17315982
[TBL] [Abstract][Full Text] [Related]
5. Divalent ion competition reveals reorganization of an RNA ion atmosphere upon folding.
Trachman RJ; Draper DE
Nucleic Acids Res; 2017 May; 45(8):4733-4742. PubMed ID: 28115628
[TBL] [Abstract][Full Text] [Related]
6. Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domain.
Noeske J; Schwalbe H; Wöhnert J
Nucleic Acids Res; 2007; 35(15):5262-73. PubMed ID: 17686787
[TBL] [Abstract][Full Text] [Related]
7. Hinge stiffness is a barrier to RNA folding.
Schlatterer JC; Kwok LW; Lamb JS; Park HY; Andresen K; Brenowitz M; Pollack L
J Mol Biol; 2008 Jun; 379(4):859-70. PubMed ID: 18471829
[TBL] [Abstract][Full Text] [Related]
8. The osmolyte TMAO stabilizes native RNA tertiary structures in the absence of Mg2+: evidence for a large barrier to folding from phosphate dehydration.
Lambert D; Leipply D; Draper DE
J Mol Biol; 2010 Nov; 404(1):138-57. PubMed ID: 20875423
[TBL] [Abstract][Full Text] [Related]
9. RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme.
Chauhan S; Caliskan G; Briber RM; Perez-Salas U; Rangan P; Thirumalai D; Woodson SA
J Mol Biol; 2005 Nov; 353(5):1199-209. PubMed ID: 16214167
[TBL] [Abstract][Full Text] [Related]
10. 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. PubMed ID: 21890900
[TBL] [Abstract][Full Text] [Related]
11. RNA tertiary interactions in a riboswitch stabilize the structure of a kink turn.
Schroeder KT; Daldrop P; Lilley DM
Structure; 2011 Sep; 19(9):1233-40. PubMed ID: 21893284
[TBL] [Abstract][Full Text] [Related]
12. 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. PubMed ID: 22139931
[TBL] [Abstract][Full Text] [Related]
13. A counterintuitive Mg2+-dependent and modification-assisted functional folding of mitochondrial tRNAs.
Jones CI; Spencer AC; Hsu JL; Spremulli LL; Martinis SA; DeRider M; Agris PF
J Mol Biol; 2006 Sep; 362(4):771-86. PubMed ID: 16949614
[TBL] [Abstract][Full Text] [Related]
14. Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae.
Lipfert J; Das R; Chu VB; Kudaravalli M; Boyd N; Herschlag D; Doniach S
J Mol Biol; 2007 Feb; 365(5):1393-406. PubMed ID: 17118400
[TBL] [Abstract][Full Text] [Related]
15. Evidence for a thermodynamically distinct Mg2+ ion associated with formation of an RNA tertiary structure.
Leipply D; Draper DE
J Am Chem Soc; 2011 Aug; 133(34):13397-405. PubMed ID: 21776997
[TBL] [Abstract][Full Text] [Related]
16. Exploring the Energy Landscape of Riboswitches Using Collective Variables Based on Tertiary Contacts.
Prajapati JD; Onuchic JN; Sanbonmatsu KY
J Mol Biol; 2022 Sep; 434(18):167788. PubMed ID: 35963460
[TBL] [Abstract][Full Text] [Related]
17. The ligand-free state of the TPP riboswitch: a partially folded RNA structure.
Ali M; Lipfert J; Seifert S; Herschlag D; Doniach S
J Mol Biol; 2010 Feb; 396(1):153-65. PubMed ID: 19925806
[TBL] [Abstract][Full Text] [Related]
18. An early transition state for folding of the P4-P6 RNA domain.
Silverman SK; Cech TR
RNA; 2001 Feb; 7(2):161-6. PubMed ID: 11233973
[TBL] [Abstract][Full Text] [Related]
19. Equilibrium unfolding (folding) pathway of a model H-type pseudoknotted RNA: the role of magnesium ions in stability.
Nixon PL; Giedroc DP
Biochemistry; 1998 Nov; 37(46):16116-29. PubMed ID: 9819204
[TBL] [Abstract][Full Text] [Related]
20. Thermodynamic examination of 1- to 5-nt purine bulge loops in RNA and DNA constructs.
Strom S; Shiskova E; Hahm Y; Grover N
RNA; 2015 Jul; 21(7):1313-22. PubMed ID: 26022248
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]