CyloFold

The tool CyloFold is a computational RNA secondary structure prediction method that can handle RNA pseudoknot interactions without algorithmic restriction. It uses a coarse-grained folding process by selecting helices based on energy rules and checking for steric feasibility using a highly coarse-grained 3D model of RNA structures. The method has been found to be competitive with existing RNA secondary structure prediction programs and is available as a web server.

Topic

Structure prediction;Nucleic acid structure analysis;RNA;Protein secondary structure;Software engineering

Detail

  • Operation: RNA secondary structure prediction;Structure visualisation;Protein secondary structure prediction;RNA structure prediction

  • Software interface: Web user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: The National Cancer Institute, National Institutes of Health, the Intramural Research Program of the NIH, National Cancer Institute, Center for Cancer Research.

  • Input: -

  • Output: -

  • Contact: shapirbr@mail.nih.gov;eckart@mail.nih.gov;kasprzaw@mail.nih.gov

  • Collection: -

  • Maturity: -

Publications

  • CyloFold: secondary structure prediction including pseudoknots.
  • Bindewald E, et al. CyloFold: secondary structure prediction including pseudoknots. CyloFold: secondary structure prediction including pseudoknots. 2010; 38:W368-72. doi: 10.1093/nar/gkq432
  • https://doi.org/10.1093/nar/gkq432
  • PMID: 20501603
  • PMC: PMC2896150

Download and documentation

    Currently not available or not maintained.

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