# Disulfide bonds HADDOCK2.4

**URL:** <https://ask.bioexcel.eu/t/disulfide-bonds-haddock2-4/2474>\
**Category:** HADDOCK\
**Created:** [September 29, 2020, 8:53am UTC](https://ask.bioexcel.eu/t/disulfide-bonds-haddock2-4/2474 "2020-09-29T08:53:09Z")\
**Posts on this page:** 3\
**Page:** 1

<div class="post-metadata">

**Author:** ![Marija](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/marija/32/278_2.png) [@Marija](https://ask.bioexcel.eu/u/Marija)\
**Post date:** [September 29, 2020, 8:53am UTC](https://ask.bioexcel.eu/t/disulfide-bonds-haddock2-4/2474/1 "2020-09-29T08:53:09Z")

</div>

Hallo,

In my protein I have many disulfide bonds and I would like to refine the structure using HADDOCK2.4. Therefore I would like to ask you if HADDOCK will treat these bonds as disulfide bonds by itself or do I have to rename the CYS which build the disulfide bonds for example to CYF.

Thank you for your time,  
Marija

---

<div class="post-metadata">

**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:** [September 29, 2020, 9:07am UTC](https://ask.bioexcel.eu/t/disulfide-bonds-haddock2-4/2474/2 "2020-09-29T09:07:27Z")

</div>

HADDOCK will detect those automatically provided the S atoms are close enough in space.

CYF would be a CYS without the sulphur hydrogen, used for coordinating ions in some case (e.g. zinc finger).

---

<div class="post-metadata">

**Author:** ![Marija](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/marija/32/278_2.png) [@Marija](https://ask.bioexcel.eu/u/Marija)\
**Post date:** [September 29, 2020, 9:25am UTC](https://ask.bioexcel.eu/t/disulfide-bonds-haddock2-4/2474/3 "2020-09-29T09:25:10Z")

</div>

Thank you very much.