Kinefold web server for RNA/DNA folding path and structure prediction including pseudoknots and knots

What you can do:
Perform stochastic folding simulations of nucleic acids.
Highlights:
  • The Kinefold web server provides a web interface for stochastic folding simulations of nucleic acids on second to minute molecular time scales.
  • Renaturation or co-transcriptional folding paths are simulated at the level of helix formation and dissociation in agreement with the seminal experimental results.
  • Pseudoknots and topologically 'entangled' helices (i.e. knots) are efficiently predicted taking into account simple geometrical and topological constraints.
  • Detailed output provide (i) a series of low free energy structures, (ii) an online animated folding path and (iii) a programmable trajectory plot focusing on a few helices of interest to each user.
Keywords:
  • RNA secondary structures
  • RNA structure analysis tool
  • RNA folding prediction tool
  • RNA local structures
  • RNA pseudoknots
  • DNA folding prediction tool
  • nucleic acid folding pathway prediction tool
Literature & Tutorials:
This record last updated: 12-20-2005
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