# Peptides containing D-aminoacids

**URL:** <https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054>\
**Category:** HADDOCK\
**Created:** [December 27, 2022, 6:54pm UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054 "2022-12-27T18:54:36Z")\
**Posts on this page:** 5\
**Page:** 1

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**Author:** ![Daniel75](https://avatars.discourse-cdn.com/v4/letter/d/ebca7d/32.png) [@Daniel75](https://ask.bioexcel.eu/u/Daniel75)\
**Post date:** [December 27, 2022, 6:54pm UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054/1 "2022-12-27T18:54:36Z")

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Hello,

Is possible to input peptides containg D-aminoacids as ligands in HADDOCK?

Regards

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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:** [December 27, 2022, 9:32pm UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054/2 "2022-12-27T21:32:00Z")

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Yes - they should be recognized provided the chirality is indeed D

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<div class="post-metadata">

**Author:** ![Daniel75](https://avatars.discourse-cdn.com/v4/letter/d/ebca7d/32.png) [@Daniel75](https://ask.bioexcel.eu/u/Daniel75)\
**Post date:** [January 2, 2023, 5:41pm UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054/3 "2023-01-02T17:41:55Z")

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Thank you !

Regards

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**Author:** ![michael](https://avatars.discourse-cdn.com/v4/letter/m/4bbf92/32.png) [@michael](https://ask.bioexcel.eu/u/michael)\
**Post date:** [March 11, 2025, 2:46pm UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054/4 "2025-03-11T14:46:21Z")

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Hi,  
So is it enough to input the PDB file of the a peptide with D-amino acids- and the run will run correctly on HADDOCK2.5 local version?  
I don’t need to input new parameter and topology files? or use different settings?  
Thanks!

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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:** [March 12, 2025, 1:34am UTC](https://ask.bioexcel.eu/t/peptides-containing-d-aminoacids/4054/5 "2025-03-12T01:34:30Z")

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Yes, provided the amino acid has the right chirality (i.e. D in this case), HADDOCK should recognise it automatically.