Siegfried NA - Search Results

1

Insight into the functional versatility of RNA through model-making with applications to data fitting.

Bevilacqua PC, Cerrone-Szakal AL, Siegfried NA. Bevilacqua PC, et al. Among authors: siegfried na. Q Rev Biophys. 2007 Feb;40(1):55-85. doi: 10.1017/S0033583507004593. Epub 2007 Mar 29. Q Rev Biophys. 2007. PMID: 17391549 Review.

2

Folding cooperativity in RNA and DNA is dependent on position in the helix.

Siegfried NA, Metzger SL, Bevilacqua PC. Siegfried NA, et al. Biochemistry. 2007 Jan 9;46(1):172-81. doi: 10.1021/bi061375l. Biochemistry. 2007. PMID: 17198387

3

Thinking inside the box: designing, implementing, and interpreting thermodynamic cycles to dissect cooperativity in RNA and DNA folding.

Siegfried NA, Bevilacqua PC. Siegfried NA, et al. Methods Enzymol. 2009;455:365-93. doi: 10.1016/S0076-6879(08)04213-4. Methods Enzymol. 2009. PMID: 19289213

4

Mechanistic characterization of the HDV genomic ribozyme: solvent isotope effects and proton inventories in the absence of divalent metal ions support C75 as the general acid.

Cerrone-Szakal AL, Siegfried NA, Bevilacqua PC. Cerrone-Szakal AL, et al. Among authors: siegfried na. J Am Chem Soc. 2008 Nov 5;130(44):14504-20. doi: 10.1021/ja801816k. Epub 2008 Oct 9. J Am Chem Soc. 2008. PMID: 18842044

5

Driving forces for nucleic acid pK(a) shifting in an A(+).C wobble: effects of helix position, temperature, and ionic strength.

Siegfried NA, O'Hare B, Bevilacqua PC. Siegfried NA, et al. Biochemistry. 2010 Apr 20;49(15):3225-36. doi: 10.1021/bi901920g. Biochemistry. 2010. PMID: 20337429 Review.

6

Role of unsatisfied hydrogen bond acceptors in RNA energetics and specificity.

Siegfried NA, Kierzek R, Bevilacqua PC. Siegfried NA, et al. J Am Chem Soc. 2010 Apr 21;132(15):5342-4. doi: 10.1021/ja9107726. J Am Chem Soc. 2010. PMID: 20345162

7

Mechanistic analysis of the hepatitis delta virus (HDV) ribozyme: methods for RNA preparation, structure mapping, solvent isotope effects, and co-transcriptional cleavage.

Chadalavada DM, Cerrone-Szakal AL, Wilcox JL, Siegfried NA, Bevilacqua PC. Chadalavada DM, et al. Among authors: siegfried na. Methods Mol Biol. 2012;848:21-40. doi: 10.1007/978-1-61779-545-9_3. Methods Mol Biol. 2012. PMID: 22315061

8

The genetic code as expressed through relationships between mRNA structure and protein function.

Mauger DM, Siegfried NA, Weeks KM. Mauger DM, et al. Among authors: siegfried na. FEBS Lett. 2013 Apr 17;587(8):1180-1188. doi: 10.1016/j.febslet.2013.03.002. Epub 2013 Mar 13. FEBS Lett. 2013. PMID: 23499436 Free PMC article. Review.

9

Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis.

Smola MJ, Rice GM, Busan S, Siegfried NA, Weeks KM. Smola MJ, et al. Among authors: siegfried na. Nat Protoc. 2015 Nov;10(11):1643-69. doi: 10.1038/nprot.2015.103. Epub 2015 Oct 1. Nat Protoc. 2015. PMID: 26426499 Free PMC article.

10

Selective 2'-hydroxyl acylation analyzed by protection from exoribonuclease (RNase-detected SHAPE) for direct analysis of covalent adducts and of nucleotide flexibility in RNA.

Steen KA, Siegfried NA, Weeks KM. Steen KA, et al. Among authors: siegfried na. Nat Protoc. 2011 Oct 6;6(11):1683-94. doi: 10.1038/nprot.2011.373. Nat Protoc. 2011. PMID: 21979276 Free PMC article.

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