Assemble

Assemble proposes an intuitive graphical interface to study and construct Complex three-dimensional RNA structures. When an RNA tertiary structure is opened with Assemble, it is automatically annotated with a secondary structure definition. This secondary structure can be used as a map to analyze the original tertiary structure. Using a secondary structure definition, Assemble can also produce a first draft of a 3D Model. Then the construction process can be pursued "by hand" using several widgets. Features: *prediction of RNA secondary structures *interactive RNA secondary structure construction and visualization *semi-automatic generation of RNA 3D models *connection Between the 2D and 3D panels *torsion angles alteration for any single residue *translation and rotation of any element from a few Atoms to a whole molecule *easy cut, Link of any molecular Chains *ability to manage your own RNA structural library using the MyPDB panel *ability to search for and save RNA structural motifs to easily fold a 3D region *embedded refinement tool *mono and stereo views *all the computer-intensive tasks are delegated to RNA WebServices *entirely developed with the Java language. Runs on Windows, Linux and MacOSX *OpenGL-powered application thanks to the JOGL API project *open source (MIT) license and free