GenTBL is a tool to generate ambiguous restraints to be used in HADDOCK.
Distance restraints are implemented in HADDOCK to force groups of atoms to be at a specific distance from each other, these are defined using Crystallography and NMR system (CNS) syntax - commonly saved as ambig.tbl.
More information about the definition of restraints can be found in the following papers:
- Bonvin, A. M. J. J., Karaca, E., Kastritis, P. L., & Rodrigues, J. P. G. L. M. (2018). Defining distance restraints in HADDOCK. In Nature Protocols (Vol. 13, Issue 7, pp. 1503–1503). Springer Science and Business Media LLC.
- de Vries, S. J., van Dijk, M., & Bonvin, A. M. J. J. (2010). The HADDOCK web server for data-driven biomolecular docking. In Nature Protocols (Vol. 5, Issue 5, pp. 883–897). Springer Science and Business Media LLC.
To generate a set of ambiguious distance restraints, fill in the information about your interactors in the form below.
- Active residues (residue numbers) are those that must be involved in the interaction
- Passive residues are those that can be involved in the interaction (not penalised if not making contacts).
- Partner defines with which interactor these set of residues should be paired. Fill here the interactor(s) number(s); if more than one interactor is defined, separate the partners by a space or comma
Active and passive residues should be separated by commas.Do not define as active or passive residues that are buried! (I.e. do filter for solvent accessibility).
Important: The updated GenTBL should be compatible with modern (and up-to-date) browsers. If you are using an older or outdated browser, please use the legacy version here.