Hello,
HADDOCK will ignore the ANISOU records but will not trigger an error for those. My advice (and this can be found in other topics: How to align pdb? this showed when i processed the pdb, Inconsistency in data- DNA-Protein Docking, Error: elemental ion CA without specified charge) is to either:
(1) Open your PDB with a viewer (PyMol for instance) and save it again via the viewer.
(2) You can also use one of our tool, called pdb_format.py from http://github.com/haddocking/pdb-tools/ that might give you more details about the faulty line.
Hope this will help,
Mikael