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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 HADDOCK2.2 can be found on the HADDOCK2.2 website
Read also what an independent review by Moreira et al. has to say about our software...
HADDOCK is one of the flagship software in the EU H2020 BioExcel Center of Excellence for Biomolecular Research.
The access of HADDOCK web server is free for non-profit users upon registration.
Reference for use of the server
G.C.P van Zundert, J.P.G.L.M. Rodrigues, M. Trellet, C. Schmitz, P.L. Kastritis, E. Karaca, A.S.J. Melquiond, M. van Dijk, S.J. de Vries and A.M.J.J. Bonvin (2016). "The HADDOCK2.2 webserver: User-friendly integrative modeling of biomolecular complexes." J. Mol. Biol., 428, 720-725 (2015).
R. Vargas Honorato, P.I. Koukos, B. Jimenez-Garcia, A. Tsaregorodtsev, M. Verlato, A. Giachetti, A. Rosato and A.M.J.J. Bonvin (2021). "Structural biology in the clouds: The WeNMR-EOSC Ecosystem." Frontiers Mol. Biosci., 8, fmolb.2021.729513 (2021).
HADDOCK2.2 webserver
REGISTRATION: To use the HADDOCK docking server you must have registered for an account. If you do not have a account yet you can register here
Note: The HADDOCK server might busy at times and/or closed to users because of workshops, tutorials or CAPRI runs. The Grid-enabled version of the HADDOCK server remains however always open.

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 questions regarding the use of the HADDOCK web server using the BioExcel HADDOCK support center.
Refer further to the online HADDOCK software page and its manual.
The WeNMR site also provides a number of HADDOCK tutorials.
HADDOCK webserver statistics
Server statistics generated on: 2024-07-16 04:08:31
Number of running requests on alcazar: 0 and of which 0 on the WeNMR/EOSC/EGI grid
Number of requests being processed on alcazar: 0 of which 0 for the grid server
Number of queued requests on alcazar: 1 of which 1 for the grid server
Total number of served requests since June 1st 2008: 658160 , of which 465025 on the WeNMR grid
Number of COVID-19 related served requests since April 1st 2020: 97518
For more statistics including HADDOCK2.4 see here
Server 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 the E2A-HPr demo run below via the "easy interface" using only chemical shift perturbations.
A demo web form for the easy interface with pre-loaded parameters is available here. It corresponds to the E2A-HPR docking example based on NMR chemical shift perturbations.

Various tutorials describing the use of the HADDOCK web portal with various combinations of data are available here

A demo of the easy interface based on the above tutorial is available in YouTube, together with a 3 hour recent lecture on HADDOCK by Prof. A. Bonvin

And finally a SBGrid webinar by Prof. A. Bonvin describing the differences between using the webserver and a local version of HADDOCK is available on YouTube