Welcome to the Haddock3 user manual

HADDOCK, standing for High Ambiguity Driven protein-protein DOCKing, is a widely used computational tool for the integrative modeling of biomolecular interactions. Developed by researchers at Utrecht University in the BonvinLab for more than 20 years, it integrates various types of experimental data, biochemical, biophysical, bioinformatic prediction, and knowledge to guide the docking process.

In this manual, we will describe:

  • the basic concepts of HADDOCK
  • the new functionalities of the haddock3 software suite
  • how to create custom workflows
  • provide example workflows

On the top-left part of your screen, you will find three icons:

  • stacked lines: allows to display/hide the table of content
  • brushes: allows to tune the colors of the manual
  • the magnifying glass: perform keyword text search in the entire manual and access corresponding pages