- RNAssess: a webserver for quality assessment of RNA 3D structures
- RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction.
- MolProbity: all-atom structure validation for macromolecular crystallography.
- RNAComposer - an automatic tool for RNA tertiary structure prediction.
- ModeRNA: a tool for comparative modeling of RNA 3D structure.
- iFoldRNA - a web portal for interactive RNA folding simulations.
- MC-Fold | MC-Sym pipeline is a web-hosted service for RNA secondary and tertiary structure prediction.
- FARNA: Rosetta software for structure prediction of small RNA sequences.