# Antigen antibody docking

**URL:** <https://ask.bioexcel.eu/t/antigen-antibody-docking/3712>\
**Category:** HADDOCK\
**Created:** [May 2, 2022, 6:40pm UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712 "2022-05-02T18:40:53Z")\
**Posts on this page:** 6\
**Page:** 1

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**Author:** ![nidhi](https://avatars.discourse-cdn.com/v4/letter/n/a5b964/32.png) [@nidhi](https://ask.bioexcel.eu/u/nidhi)\
**Post date:** [May 2, 2022, 6:40pm UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/1 "2022-05-02T18:40:53Z")

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How do I select the best pose when the L-RMSD calculation is not posibilbe as refrence structure is not available ?

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**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:** [May 3, 2022, 8:13am UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/2 "2022-05-03T08:13:17Z")

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In principle based on the HADDOCK score.

Check also our antibody-antigen tutorial at [Education & Tutorials of the Bonvin Lab – Bonvin Lab](http://BonvinLab.org/education)

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**Author:** ![nidhi](https://avatars.discourse-cdn.com/v4/letter/n/a5b964/32.png) [@nidhi](https://ask.bioexcel.eu/u/nidhi)\
**Post date:** [May 24, 2022, 4:45am UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/3 "2022-05-24T04:45:02Z")

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what is the best/suitable HADDOCK score?

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**Author:** ![nidhi](https://avatars.discourse-cdn.com/v4/letter/n/a5b964/32.png) [@nidhi](https://ask.bioexcel.eu/u/nidhi)\
**Post date:** [May 24, 2022, 4:56am UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/4 "2022-05-24T04:56:35Z")

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How can I select the best model from top 4 models within a cluster? What are their individual scores within a cluster?

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**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:** [May 31, 2022, 11:15am UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/5 "2022-05-31T11:15:58Z")

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The HADDOCK score itself! 🙂

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<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:** [May 31, 2022, 11:17am UTC](https://ask.bioexcel.eu/t/antigen-antibody-docking/3712/6 "2022-05-31T11:17:04Z")

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The first model of a cluster is always the best one in score.

But you might look at all of them to get an idea of the variability within one cluster