# HADDOCK score vs. Prodigy Binding energy?

**URL:** <https://ask.bioexcel.eu/t/haddock-score-vs-prodigy-binding-energy/3919>\
**Category:** Uncategorized\
**Created:** [September 29, 2022, 12:41pm UTC](https://ask.bioexcel.eu/t/haddock-score-vs-prodigy-binding-energy/3919 "2022-09-29T12:41:27Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![dalpizar](https://avatars.discourse-cdn.com/v4/letter/d/71e660/32.png) [@dalpizar](https://ask.bioexcel.eu/u/dalpizar)\
**Post date:** [September 29, 2022, 12:41pm UTC](https://ask.bioexcel.eu/t/haddock-score-vs-prodigy-binding-energy/3919/1 "2022-09-29T12:41:28Z")

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Hello,

I have several representative conformations for a protein-peptide complex calculated with HADDOCK 2.4. I have the HADDOCK score and also the Prodigy Binding Energy for the same complex. If I want to select the best representative conformation, which parameter should I trust more, the HADDOCK score or the Prodigy Binding Energy?

Best Regards  
D

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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:** [October 14, 2022, 8:29am UTC](https://ask.bioexcel.eu/t/haddock-score-vs-prodigy-binding-energy/3919/2 "2022-10-14T08:29:32Z")

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I would trust more the HADDOCK score.

Also PRODIGY has not been trained on protein-peptide complexes.