- HADDOCK (High Ambiguity Driven protein-protein DOCKing) is an information-driven flexible docking approach for the modeling of biomolecular complexes. HADDOCK distinguishes itself from ab-initio docking methods in the fact that it encodes information from identified or predicted protein interfaces in ambiguous interaction restraints (AIRs) to drive the docking process. HADDOCK can deal with a large class of modeling problems including protein-protein, protein-nucleic acids and protein-ligand complexes.
- More information about HADDOCK can be found on the HADDOCK website
- HADDOCK webserver
- To use the HADDOCK eNMR GRID-enabled docking server you must:
- have registered for a GRID-enabled HADDOCK account
- have registered with the eNMR grid infrastructure.
- Note: registration does require a valid grid certificate!!!
-
The default HADDOCK settings used by the server can be found here A list of modified amino acids supported by HADDOCK can be found here
- HADDOCK help center
- You can post question regarding the use of the HADDOCK web server using the WeNMR HADDOCK support center. To make use of this service you should first register with the WeNMR virtual research community (register link on the top right of the WeNMR page).
- Further the WeNMR site also provides a number of HADDOCK tutorials and a WIKI page to which you can contribute.
- HADDOCK webserver statistics
- Server statistics generated on: 2012-05-16 23:32:45
- Number of running requests: 20 , of which 10 on the eNMR grid
- Number of queued requests: 46
- Total number of served requests as of June 1st 2008:
27090
,
of which 3398 on the eNMR grid - Number of registered users: 2204 ( 1721 easy / 184 expert / 299 guru)
- Number of registered users for the grid-enabled portal: 131
- Reference for use of the WeNMR GRID-enabled server
-
S.J. de Vries, M. van Dijk and A.M.J.J. Bonvin
"The HADDOCK web server for data-driven biomolecular docking."
Nature Protocols, 5, 883-897 (2010). - And add in addition the following text to the acknowledgment section:
"The eNMR and WeNMR projects (European FP7 e-Infrastructure grants, contract no. 213010 and 261572), supported by the national GRID Initiatives of Belgium, Italy, Germany, the Netherlands (via the Dutch BiG Grid project), Portugal, UK, South Africa and the Latin America GRID infrastructure via the Gisela+ project is acknowledged for the use of web portals, computing and storage facilities."
- Server output example
- An example of the server output for the e2a-hpr example provided with the HADDOCK distribution can be found here. This is the result of a run via the "easy interface" using only chemical shift perturbations as defined in the HADDOCK tutorial.
- Tutorials
- A demo web form for the easy interface with pre-loaded parameters is available here
A demo web form for the guru interface with pre-loaded parameters is available here
A tutorial describing the use of the HADDOCK web portal with various combinations of data is available here
A tutorial movie is available here (requires Flash)
