# Best practice for heparin docking?

**URL:** <https://ask.bioexcel.eu/t/best-practice-for-heparin-docking/5276>\
**Category:** HADDOCK\
**Created:** [October 1, 2024, 4:09pm UTC](https://ask.bioexcel.eu/t/best-practice-for-heparin-docking/5276 "2024-10-01T16:09:11Z")\
**Posts on this page:** 1\
**Showing post:** 2

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**Author:** ![marco.giulini](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/marco.giulini/32/961_2.png) [@marco.giulini](https://ask.bioexcel.eu/u/marco.giulini)\
**Post date:** [October 2, 2024, 6:37am UTC](https://ask.bioexcel.eu/t/best-practice-for-heparin-docking/5276/2 "2024-10-02T06:37:02Z")

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Hi,

Setting up heparing as a ligand is likely the best choice, as it is typically highly sulfated and we currently have no support for sulfonated glycans (the list of supported ones is here [HADDOCK Web Server - Settings](https://wenmr.science.uu.nl/haddock2.4/library)). See for example this topic [Recognition problem after glycan sulfation](https://ask.bioexcel.eu/t/recognition-problem-after-glycan-sulfation/4641)

For supported glycans there is a new tutorial describing the best docking protocol (in that case using HADDOCK3): [Protein-glycan modelling tutorial using a local version of HADDOCK3 – Bonvin Lab](https://www.bonvinlab.org/education/HADDOCK3/HADDOCK3-protein-glycan/)

Cheers,  
Marco

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