Software

1. On-line access

  • KBDock : a database of protein domain interactions
  • Galaxy instance dedicated to the docking of biomolecules

2. Download

  • Eros-Dock: rigid protein docking by rotational search
  • Hex : Fast rigid protein-protein/ligand docking
  • Sam : Symmetric Assembly of multimeric proteins
  • Kpax : Proteins 3D-shape comparison
  • gEMtools : for Cryo-EM image analyses

3. In-house usage (available through collaborative projects)

Open-source :
  • Molecular Dynamics simulation : NAMD
  • Docking : Attract
  • Database management systems : MySQL/PHP_MyAdmin, Postgresql/PgAdmin, RDF TripleStore, Neo4J
  • Data mining  : KNIME, SPMF, R, WEKA
Commercial :
  • Docking : GOLD
  • Ligand conformation : Corina, Parafit, Parasurf
In-house developments :
  • Data integration and data mining  : KNIME workflows,
  • Structural Bioinformatics : SOM