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Journal of Biomolecular Structure and Dynamics Volume 19, 2001 - Issue 3
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Original Articles

Molecular Dynamics Simulations of the Denaturation and Refolding of an RNA Tetraloop

Wen Li Laboratory of Experimental and Computational Biology Center for Cancer Research, National Cancer Institute, National Institutes of Health, Building 469, Room 150, Frederick, MD, 21702, U.S.A.
,
Buyong Ma Laboratory of Experimental and Computational Biology Center for Cancer Research, National Cancer Institute, National Institutes of Health, Building 469, Room 150, Frederick, MD, 21702, U.S.A.
&
Bruce A. Shapiro Laboratory of Experimental and Computational Biology Center for Cancer Research, National Cancer Institute, National Institutes of Health, Building 469, Room 150, Frederick, MD, 21702, U.S.A.
Pages 381-396 | Received 23 Apr 2001, Published online: 15 May 2012

Citations (12)

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Read on this site (2)

Boel Nyström & Lennart Nilsson. (2007) Molecular Dynamics Study of Intrinsic Stability in Six RNA Terminal Loop Motifs. Journal of Biomolecular Structure and Dynamics 24:6, pages 525-535.
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MoonK. Kim, Wen Li, BruceA. Shapiro & GregoryS. Chirikjian. (2003) A Comparison Between Elastic Network Interpolation and MD Simulation of 16S Ribosomal RNA. Journal of Biomolecular Structure and Dynamics 21:3, pages 395-405.
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Articles from other publishers (10)

G. Perret & E. Boschetti. 2020. Aptamers in Biotechnology. Aptamers in Biotechnology 93 139 .
Rajesh K. Nayak & Alan Van Orden. (2013) Counterion and Polythymidine Loop-Length-Dependent Folding and Thermodynamic Stability of DNA Hairpins Reveal the Unusual Counterion-Dependent Stability of Tetraloop Hairpins. The Journal of Physical Chemistry B 117:45, pages 13956-13966.
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Antje Wolf, Sascha Baumann, Hans-Dieter Arndt & Karl N. Kirschner. (2012) Influence of thiostrepton binding on the ribosomal GTPase associated region characterized by molecular dynamics simulation. Bioorganic & Medicinal Chemistry 20:24, pages 7194-7205.
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Bruce A. Shapiro, Eckart Bindewald, Wojciech Kasprzak & Yaroslava Yingling. 2008. Nanostructure Design. Nanostructure Design 93 115 .
Zhuoyun Zhuang, Luc Jaeger & Joan-Emma Shea. (2007) Probing the structural hierarchy and energy landscape of an RNA T-loop hairpin. Nucleic Acids Research 35:20, pages 6995-7002.
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Nan-Jie Deng & Piotr Cieplak. (2007) Molecular Dynamics and Free Energy Study of the Conformational Equilibria in the UUUU RNA Hairpin. Journal of Chemical Theory and Computation 3:4, pages 1435-1450.
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S. Elizabeth McDowell, Nad'a Špačková, Jiří Šponer & Nils G. Walter. (2007) Molecular dynamics simulations of RNA: Anin silico single molecule approach. Biopolymers 85:2, pages 169-184.
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Yaroslava G. Yingling & Bruce A. Shapiro. (2005) Dynamic Behavior of the Telomerase RNA Hairpin Structure and its Relationship to Dyskeratosis Congenita. Journal of Molecular Biology 348:1, pages 27-42.
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VLAD COJOCARU, STEPHANIE NOTTROTT, REINHARD KLEMENT & THOMAS M. JOVIN. (2005) The snRNP 15.5K protein folds its cognate K-turn RNA: A combined theoretical and biochemical study. RNA 11:2, pages 197-209.
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Joanna Sarzynska, Lennart Nilsson & Tadeusz Kulinski. (2003) Effects of Base Substitutions in an RNA Hairpin from Molecular Dynamics and Free Energy Simulations. Biophysical Journal 85:6, pages 3445-3459.
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