# HADDOCK Topology Issue

**URL:** <https://ask.bioexcel.eu/t/haddock-topology-issue/1006>\
**Category:** HADDOCK\
**Created:** [June 16, 2018, 8:35pm UTC](https://ask.bioexcel.eu/t/haddock-topology-issue/1006 "2018-06-16T20:35:40Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![kye\_stachowski](https://avatars.discourse-cdn.com/v4/letter/k/7feea3/32.png) [@kye\_stachowski](https://ask.bioexcel.eu/u/kye_stachowski)\
**Post date:** [June 16, 2018, 8:35pm UTC](https://ask.bioexcel.eu/t/haddock-topology-issue/1006/1 "2018-06-16T20:35:40Z")

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Hi all,

I keep getting the following error when trying to dock the two pdb files below together using the easy interface on the webserver:

%GENRES-ERR: residue MET not found in topology files. Add topology definition.

pdb files are located here: [https://drive.google.com/open?id=1hSnU-bnCqF4iwMYXQsSgUA26p7V2Wlyh](https://drive.google.com/open?id=1hSnU-bnCqF4iwMYXQsSgUA26p7V2Wlyh)

Thanks,  
Kye

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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:** [June 17, 2018, 7:06am UTC](https://ask.bioexcel.eu/t/haddock-topology-issue/1006/2 "2018-06-17T07:06:27Z")

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Easy answer looking at your HADDOCK parameter file: You swapped the protein and DNA in the input… Defining the protein as DNA and vice versa.

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<div class="post-metadata">

**Author:** ![kye\_stachowski](https://avatars.discourse-cdn.com/v4/letter/k/7feea3/32.png) [@kye\_stachowski](https://ask.bioexcel.eu/u/kye_stachowski)\
**Post date:** [June 17, 2018, 3:48pm UTC](https://ask.bioexcel.eu/t/haddock-topology-issue/1006/3 "2018-06-17T15:48:35Z")

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Doh! I thought the line was asking what the inputted molecule would be docking to…

Thanks for all the help Dr. Bonvin!

Cheers,  
Kye