Inhibition of Escherichia coli RNase P by oligonucleotide directed misfolding of RNA

@article{citeulike:2505958, abstract = {Oligonucleotide directed misfolding of RNA (ODMiR) uses short oligonucleotides to inhibit RNA function by exploiting the ability of RNA to fold into different structures with similar free energies. It is shown that the 2'-O-methyl oligonucleotide, m(CAGCCUACCCGG), can trap Escherichia coli RNase P RNA (M1 RNA) in a nonfunctional structure in a transcription mixture containing RNase P protein (C5 protein). At about 200 nM, the 12-mer thus inhibits 50\% of pre-tRNA processing by RNase P. Roughly 10-fold more 12-mer is required to inhibit RNase P containing full-length, renatured RNase P RNA. Diethyl pyrocarbonate modification in the presence of 12-mer reveals increased modification of sites in and interacting with P4, suggesting a structural rearrangement of a large pseudoknot important for catalytic activity. Thus, the ODMiR method can be applied to RNAs even when folding is facilitated by a cognate protein. 10.1261/rna.5780503}, author = {Childs, Jessica L. and Poole, Alex W. and Turner, Douglas H. }, citeulike-article-id = {2505958}, doi = {http://dx.doi.org/10.1261/rna.5780503}, journal = {RNA}, keywords = {bacterial, folding, rna, rnasep}, month = {December}, number = {12}, pages = {1437--1445}, posted-at = {2008-03-11 05:35:11}, priority = {4}, title = {Inhibition of Escherichia coli RNase P by oligonucleotide directed misfolding of RNA}, url = {http://dx.doi.org/10.1261/rna.5780503}, volume = {9}, year = {2003} }

TY - JOUR ID - citeulike:2505958 L3 - citeulike-article-id:2505958 TI - Inhibition of Escherichia coli RNase P by oligonucleotide directed misfolding of RNA JF - RNA VL - 9 IS - 12 SP - 1437 EP - 1445 N2 - Oligonucleotide directed misfolding of RNA (ODMiR) uses short oligonucleotides to inhibit RNA function by exploiting the ability of RNA to fold into different structures with similar free energies. It is shown that the 2'-O-methyl oligonucleotide, m(CAGCCUACCCGG), can trap Escherichia coli RNase P RNA (M1 RNA) in a nonfunctional structure in a transcription mixture containing RNase P protein (C5 protein). At about 200 nM, the 12-mer thus inhibits 50% of pre-tRNA processing by RNase P. Roughly 10-fold more 12-mer is required to inhibit RNase P containing full-length, renatured RNase P RNA. Diethyl pyrocarbonate modification in the presence of 12-mer reveals increased modification of sites in and interacting with P4, suggesting a structural rearrangement of a large pseudoknot important for catalytic activity. Thus, the ODMiR method can be applied to RNAs even when folding is facilitated by a cognate protein. 10.1261/rna.5780503 KW - bacterial KW - folding KW - rna KW - rnasep AU - Childs, Jessica AU - Poole, Alex AU - Turner, Douglas PY - 2003/12/01/ UR - http://dx.doi.org/10.1261/rna.5780503 ER -