# Peptide-protein tutorial **URL:** \ **Category:** HADDOCK\ **Created:** [July 5, 2018, 11:16am UTC](https://ask.bioexcel.eu/t/peptide-protein-tutorial/1047 "2018-07-05T11:16:57Z")\ **Posts on this page:** 2\ **Page:** 1
**Author:** ![Urszula\_Uciechowska](https://avatars.discourse-cdn.com/v4/letter/u/ad7895/32.png) [@Urszula\_Uciechowska](https://ask.bioexcel.eu/u/Urszula_Uciechowska)\ **Post date:** [July 5, 2018, 11:16am UTC](https://ask.bioexcel.eu/t/peptide-protein-tutorial/1047/1 "2018-07-05T11:16:57Z")
Hi, I was wondering if there is any tutorial on peptide-protein docking for running on local pc? I would like to know how to prepare parameter/topology files for peptide or protein. I saw tutorials on the website but there are mostly for web-server runs … best Urszula ---
**Author:** ![amjjbonvin](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/amjjbonvin/32/23_2.png) [@amjjbonvin](https://ask.bioexcel.eu/u/amjjbonvin)\ **Post date:** [July 5, 2018, 12:45pm UTC](https://ask.bioexcel.eu/t/peptide-protein-tutorial/1047/2 "2018-07-05T12:45:44Z")
In principle the preparation would be kind of the same as for the web server and for protein-protein (except that you will be using an ensemble of peptides instead). The following chapter would describe a local setup for protein-peptide docking (simply neglect the first MD part): C. Geng, S. Narasimhan, J. P.G.L.M. Rodrigues and A.M.J.J. Bonvin. Information-driven, ensemble flexible peptide docking using HADDOCK. Methods in Molecular Biology: Modeling Peptide-Protein Interactions. Eds Ora Schueler-Furman and Nir London. Humana Press Inc. 1561, 109-138 (2017). > **[Information-Driven, Ensemble Flexible Peptide Docking Using HADDOCK](https://link.springer.com/protocol/10.1007%2F978-1-4939-6798-8_8)** > > Modeling protein-peptide interactions remains a significant challenge for docking programs due to the inherent highly flexible nature of peptides, which often adopt different conformations whether in...