A Web Service for Automated Design of Multiple Types of Ribozymes Targeting RNA: from minimal hammerhead to aptazymes

Ribosoft 2.0 is the second version of a web service to design different types of trans -acting conventional and allosteric ribozymes. The web service is publicly available at . Ribosoft 2.0 uses template secondary structures that can be submitted by users to design ribozymes in accordance with parameters provided by the user. The generated designs specifically target a transcript (or, generally, an RNA sequence) given by the user. Herein, sixty ribozymes of different types were tested on two different mRNAs, with a majority shown to be active. We have also generated and proved the activity of the first trans -acting aptazyme designed in silico . ### Competing Interest Statement We may, in the future, envision the use of Ribosoft2, or tools derived from it, to design ribozymes for applications of commercial value. However this has not influenced in any way the results presented herein.