DOCK Blaster

DOCK Blaster is a free web based molecular docking and virtual screening service, on the web at http://blaster.docking.org. Alpha testers, please read our welcome letter.

To get started, you will need at the very least the following:

• The structure of the target in PDB format (best) or mol2 format
• A specification of the binding site. This may be one of the following:
  • A docked ligand in mol2 format, which is also used to test the docking parameterization
  • "hot spots", in PDB format, which may be based on one or more ligands.
  • Atoms of residues forming the binding site. The center of intertia of these atoms should coincide with where you expect the ligand to go.

That's really all you need to get started. If you don't have a particular project in mind, and you are just curious about DOCK Blaster, you may use some sample data to experiment. To read more, please consult the topics below.

Before you get started

• DOCK Blaster:Preliminaries

Preparation and Docking

• DOCK Blaster:Prepare Input
  • DOCK Blaster:Prepare Receptor
  • DOCK Blaster:Prepare Ligand
  • DOCK Blaster:Other Input Options
  • DOCK Blaster:Input Troubleshooting
• DOCK Blaster:Job Management

Understanding the Results

• DOCK Blaster:Results
  • DOCK Blaster:Initial Evaluation
  • DOCK Blaster:Results Browser
  • DOCK Blaster:Large Database Docking
  • DOCK Blaster:Custom Database
  • DOCK Blaster:Test Compounds

Other information

• DOCK Blaster:Philosophy
• DOCK Blaster:Annotations
• DOCK Blaster:History
• DOCK Blaster:Credits
• Terms And Conditions
• Just Watching

To cite DOCK Blaster, please reference Huang, Shoichet, Irwin, "Benchmarking Sets for Molecular Docking", J Med Chem 2006, 49(23), 6789-6801

We welcome your feedback about DOCK Blaster. Please write to us at comments at docking.org.