# Prepare for docking with CPORT

**URL:** <https://ask.bioexcel.eu/t/prepare-for-docking-with-cport/1982>\
**Category:** HADDOCK\
**Created:** [April 30, 2020, 9:48pm UTC](https://ask.bioexcel.eu/t/prepare-for-docking-with-cport/1982 "2020-04-30T21:48:25Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![seanz](https://avatars.discourse-cdn.com/v4/letter/s/eb9ed0/32.png) [@seanz](https://ask.bioexcel.eu/u/seanz)\
**Post date:** [April 30, 2020, 9:48pm UTC](https://ask.bioexcel.eu/t/prepare-for-docking-with-cport/1982/1 "2020-04-30T21:48:25Z")

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I’m using CPORT to predict the active and passive residues for my proteins. I want to dock two subunits, one from dimer and another is from trimer. So when I use CPORT to do the prediction, should I use the dimer and trimer, or just the simple subunit? I got very different result from these two methods.  
I am wondering if anyone had the same problem before.

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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 1, 2020, 7:21am UTC](https://ask.bioexcel.eu/t/prepare-for-docking-with-cport/1982/2 "2020-05-01T07:21:34Z")

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I would use the dimer or trimer. You want to exclude from your predictions the regions that are buried in the interface between the monomers