RNAMasonry builds RNA models from recurrent 3D motifs
RNA Masonry builds atomic models of RNA molecules using recurrent 3D motifs available in RNA Bricks database. The program exploits hierarchical organization of RNA structures composed of regularly shaped double-stranded helices and irregularly shaped loop motifs. Algorithms implemented in RNA Masonry merge these motifs to build a model that has the user-provided secondary structure and plausible local geometry that maximizes the SimRNA energy function. RNA Masonry can also use additional restraints like tertiary contacts or small angle scattering data.
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