Biophysics of RNA Folding by Rick Russell (auth.), Rick Russell (eds.)

By Rick Russell (auth.), Rick Russell (eds.)

This quantity, written by means of specialists within the box, discusses the present figuring out of the biophysical ideas that govern RNA folding, with featured RNAs together with the ribosomal RNAs, viral RNAs, and self-splicing introns. as well as the basic gains of RNA folding, the crucial experimental and computational methods within the box are awarded with an emphasis on their person strengths and barriers, and the way they are often mixed to be extra strong than any procedure on my own; those methods comprise NMR, unmarried molecule fluorescence, site-directed spin labeling, constitution mapping, comparative series research, graph thought, course-grained 3D modeling, and extra. This quantity should be of curiosity to specialist researchers and complicated scholars getting into the sphere of RNA folding.

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Nucleic Acids Res 35(5):1726–1736 Sullenger BA, Gilboa E (2002) Emerging clinical applications of RNA. Nature 418(6894):252–258 Tinoco I Jr et al (1971) Estimation of secondary structure in ribonucleic acids. Nature 230(5293):362–367 Tuerk C, Gold L (1990) Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249(4968):505–510 Waterman MS (1978) Secondary Structure of Single-Stranded Nucleic Acids. Adv Mathematics Suppl Stud 1:167–212 Weeks KM (2010) Advances in RNA structure analysis by chemical probing.

2011). Predictions are expected to improve with the number of solved RNAs. In addition, we proposed an improved classification of RNA-like and non-RNA-like topologies using a supervised clustering algorithm 42 N. Kim et al. based on existing RNAs (Izzo et al. 2011). 8 shows RNA-like topologies with 4 and 5 vertices. Many of the proposed RNA-like topologies contain subelements that are found in other RNAs (red segments in Fig. 8). 2 In Vitro Selection Modeling In Silico Another application of RAG is the modeling of RNA in vitro selection, a widely used experimental technology for finding active RNAs for biotechnology and therapeutic applications.

7 Graphical representation and secondary structure of the five candidate topologies and their corresponding identified RNAs (Kim et al. 2004; Izzo et al. 2011). (a) Candidate topologies and their converted 2D structures. The submotifs found in nature are colored in red. The last column shows the existing RNA motifs that we identified in the Rfam with their ID number in parenthesis. (b) Sequence alignment of four pairs (C1 vs. CPEB3, C2 vs. Purine Riboswitch, C3 vs. tRNA-like, C4 vs. Tombusvirus 3¢ UTR region IV, C7 vs.

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