I am performing Advanced refinement on HADDOCK2.2 Multi-body interface server. I have 6 different states of the same system. My input pdb file formats are all the same but my 3 of runs failed in topology generation. I attached my pdb files here and tagged the failed pdb as “failed”. I am writing the error message below:
Status: FAILED There was an error in the topology generation. The most likely cause is an unusual format of your PDB structures.
I thought the error was due to clash in the structure, but also I though HADDOCK refinement will remove this clash. How can I solve this case?