Docking glucosaminoglycans

HADDOCK
1

I am trying to dock ligand -(glycosamino glycan) to the receptor. However I am getting an error message:

Error message

Unable to generate topology for ligand ROH. PRODRG did not create the required output:
PRODRG> WARNING: deleted hydrogen H1 from your input.

Any ideas how could I correct it?

Many thanks
Urszula

2

There is something fishy with your system and PRODRG complains, that’s all I can say for the moment. Can you send us your PDB by email (haddock.support_[at]_gmail.com)