SwissDock, a protein-small molecule docking web service based on EADock DSS

Most life science processes involve, at the atomic scale, recognition between two molecules. The prediction of such interactions at the molecular level, by so-called docking software, is a non-trivial task. Docking programs have a wide range of applications ranging from protein engineering to drug design. This article presents SwissDock, a web server dedicated to the docking of small molecules on target proteins. It is based on the EADock DSS engine, combined with setup scripts for curating common problems and for preparing both the target protein and the ligand input files. An efficient Ajax/HTML interface was designed and implemented so that scientists can easily submit dockings and retrieve the predicted…

• NS
  National Science Foundation

  Awards: RR001081, 310030
• SN
  Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung

  Awards: 103173, 130857, 103172, 3200B0, 310030
• O
  Oncosuisse
• NI
  National Institutes of Health

  Awards: RR001081, P41 RR001081
• UO
  University of California, San Francisco