Chapter title |
Computational Generation of RNA Nanorings
|
---|---|
Chapter number | 2 |
Book title |
RNA Nanostructures
|
Published in |
Methods in molecular biology, July 2017
|
DOI | 10.1007/978-1-4939-7138-1_2 |
Pubmed ID | |
Book ISBNs |
978-1-4939-7137-4, 978-1-4939-7138-1
|
Authors |
Rishabh Sharan, Eckart Bindewald, Wojciech K. Kasprzak, Bruce A. Shapiro |
Abstract |
A variety of designed RNA ring structures (ranging from triangles to hexagonal rings) have been reported in the scientific literature. Designing self-assembling RNA ring structures from structural motifs is, however, a nontrivial problem as there are many combinations of motifs and linking helices. Moreover, most combinations of motifs and linker helices will not lead to ring closure. A solution to this problem was recently published using a "design-by-catalog" approach where motif combinations that lead to rings are precomputed and tabulated. Here we present a web-browser based workflow for creating RNA rings using Galaxy, a web-based platform that can be used for workflow management. An example of how these RNA rings are generated and processed to create a 3D model of the ring is discussed. |
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