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ARTS is a fully automated method for aligning a pair of nucleic acid 3D structures (RNAs or DNAs) and detecting a-priori unknown common substructures. The identified common substructures can be either large global folds containing hundreds and even thousands of nucleotides or small local tertiary motifs with at least two successive base pairs.

ARTS is highly-efficient and can be used to search 3D databases given a query structure. Recently, ARTS was used to construct the DARTS classification database of all solved RNA 3D structures.

Trying ARTS:

For a quick start you can try ARTS web server. If you wish to use more advanced options you can download the software.


  • O. Dror, R. Nussinov and H. J. Wolfson (2005). ARTS: alignment of RNA tertiary structures. Proceedings of the 4th European Conference on  Computational Biology/6th Meeting of the Spanish Bioinformatics Network (ECCB/JBI'05). Bioinformatics, 21, ii47-ii53 [Abstract] [PDF]
  • O. Dror, R. Nussinov, and H. J. Wolfson (2006). The ARTS web server for aligning RNA tertiary structures, Nucleic Acids Research, 34, W412-W415 [Abstract] [PDF].