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Computational Generation of RNA Nanorings.

  1. Author:
    Sharan, Rishabh
    Bindewald, Eckart
    Kasprzak, Wojciech
    Shapiro, Bruce

  2. Author Address

    RNA Structure and Design Section, RNA Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA., Frederick National Laboratory for Cancer Research, Leidos Biomedical Research, Frederick, MD, USA., Basic Science Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, MD, 21702, USA., RNA Structure and Design Section, RNA Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD, 21702, USA. shapirbr@mail.nih.gov.,
    1. Year: 2017
  2. Journal: Methods in molecular biology (Clifton, N.J.)
    1. 1632
    2. Pages: 19-32
  4. Type of Article: Article
  1. 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 160;rings are generated and processed to create a 3D model of the ring is discussed.

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External Sources

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  2. DOI: 10.1007/978-1-4939-7138-1_2
  3. PMID: 28730430
  4. View record in Web of Science®
  5. WOS: 000428874700003

Library Notes

  1. Fiscal Year: FY2016-2017
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