I appreciate the input Paul and Nigel. The cif dictionary file you sent me doesn't have matching restraint definitions for 53 atoms in the ACD file. I opened the cif file you sent and extracted the SMILES code for ACD. Then I ran it in phenix.elbow to have it generate a pdb of the ACD. Then i would use the cif file you sent and import it into coot or phenix.refine, but it would not match the cif and pdb. I can wait for the new nightly build to come out, but I was wondering why this process wouldn't work.
Paul, I'm not as familiar with the CCP4 suite. Refmac5 doesn't give me as many new Fo-Fc peaks to build more model into as does phenix.refine even though Rfree numbers are comparable.
