Vfold3D 2.0 is an automated software designed to predict the 3D structure of an RNA molecule based on its sequence and 2D structure as input. This algorithm leverages the integration of structure templates of helices, loops, and other motifs from known RNA 3D structures.

While Vfold3D 2.0 often provides reliable RNA structure predictions, it's important to note that the availability of templates can sometimes limit the software's ability to generate 3D structures. Should you encounter this limitation, we invite you to explore our new solution: Vfold-Pipeline at http://rna.physics.missouri.edu/vfoldPipeline

Submit a new job:
(1) Input sequence and 2D structure in dot-bracket format (Use "-" to separate RNA strands for RNA complex systems (up to 10 strands)):

(2) Number of clusters (<=5):

(3) RMSD cut_off ( in ) for clustering (<=10 ):

(4) Job name (alphanumeric characters only):

(5) Your email address (optional, you will receive the results by email, if provided):

References for Vfold3D:

[1] Xu X, Chen S-J. (2017) RNA three-dimensional structure prediction using hierarchical loop template assembly.
[2] Xu X, Zhao P, Chen S-J. (2014) Vfold: a web server for RNA structure and folding thermodynamics prediction. PLoS ONE, 9(9):e107504.
[3] Cao S, Chen S-J. (2011) Physics-based de novo prediction of RNA 3D structures. The Journal of Physical Chemistry B, 115:4216-4226.

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