Software

Sirius visualization system: version 1.2

Sirius is a component-based visualization framework designed for application in molecular modeling, drug discovery, protein structure analysis, as well as database mining and sequence-based work. It is equally suited for protein and small molecule construction and visualization. At this point, the development status of the project is uncertain. Please take a look at the About section of this website.

The primary features include:

• full support for structure building from fragments and peptide editor
• graphical front-end for Modeller
• distance- and geometry-based addition of hydrogens and detection of hydrogen bonds and steric clashes
• command line interface and scripting compatible with RasMol
• visualization of molecular dynamics trajectories with support for multi-file simulations, real-time secondary structure and RMSD calculations and export of trajectories as video
• protein structure alignment
• independent manipulation of displayed structures
• support for PDB, MOL2, SDF and other formats
• export of photorealistic graphics using bundled POV-Ray
• access to PDB, InterPro and Uniprot databases with interactive features
• highly capable sequence alignment editor
• export/import of the current display
• cross-viewer connectivity for common selection and coloring

In addition to the desktop application, the 3D visualization component has been adapted to serve as a Web component for plugging into Web pages, either static or generated dynamically from back-end databases. Contact us for file distribution to use the applet version of Sirius with your project.

Sirius desktop environment is distributed freely to academic and non-profit organizations.