# Question about webserver **URL:** \ **Category:** HADDOCK\ **Created:** [November 18, 2021, 5:32pm UTC](https://ask.bioexcel.eu/t/question-about-webserver/3343 "2021-11-18T17:32:05Z")\ **Posts on this page:** 4\ **Page:** 1
**Author:** ![kax009](https://avatars.discourse-cdn.com/v4/letter/k/d07c76/32.png) [@kax009](https://ask.bioexcel.eu/u/kax009)\ **Post date:** [November 18, 2021, 5:32pm UTC](https://ask.bioexcel.eu/t/question-about-webserver/3343/1 "2021-11-18T17:32:05Z")
The HADDOCK category is meant to discuss any HADDOCK-related issue. For general information about HADDOCK refer to [HADDOCK – Bonvin Lab](http://www.bonvinlab.org/software/haddock2.4) I am new to Haddock and want to dock a DNA-Protein complex(A) with another protein(B). I read handbooks and several tutorial, but are still confused. Both A and B are dimers, I know the hypothetical motif that B would bind to A, but I have not yet performs NMR. Could I just use a.a in motif as active residue? The other question is how to perform the re-numbering. For dimer A there two sequences with title XXXX(pdb number)\_0001 XXXX(pdb number)\_0002, both with chain A, and possess a lot of 0 in the sequence, I am not sure about the trimming. Do I still perform the pdb\_selchain.py? if so how do I call the sequences? I use the output of pymol for renumbering ( I trim a bit with pymol), would that be okay? Also, how to determine the residue number of active residues after the renumber, when entering the residue number, could I use the format as 1-10? Thanks! ---
**Author:** ![kax009](https://avatars.discourse-cdn.com/v4/letter/k/d07c76/32.png) [@kax009](https://ask.bioexcel.eu/u/kax009)\ **Post date:** [November 18, 2021, 7:51pm UTC](https://ask.bioexcel.eu/t/question-about-webserver/3343/2 "2021-11-18T19:51:12Z")
When I upload my file, it says “Your PDB contains multiple residues with number 1 in chain A or duplicated atom names.” How shall I correct that? ---
**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:** [November 19, 2021, 8:40am UTC](https://ask.bioexcel.eu/t/question-about-webserver/3343/3 "2021-11-19T08:40:13Z")
Remove the duplications 🙂 Search the forum - this question has been answered many times. Probably due to overlap in numbering. ---
**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:** [November 19, 2021, 8:59am UTC](https://ask.bioexcel.eu/t/question-about-webserver/3343/4 "2021-11-19T08:59:41Z")
An example of shifting the number of chains is given in our local HADDOCK installation tutorial. You should be able to perform the same using our PDB-Tools web server. Check: [https://www.bonvinlab.org/education/HADDOCK24/HADDOCK24-local-tutorial/#dealing-with-multi-chain-proteins](https://www.bonvinlab.org/education/HADDOCK24/HADDOCK24-local-tutorial/#dealing-with-multi-chain-proteins)