I am trying to refine a protein-DNA structure, and I am having difficulties refining the DNA using COOT. I used the ccp4i Phaser program to molecular replace the protein and DNA simultaneously (there are solved crystal structures of the free protein and a similar DNA bound to another protein), but I am only able to manually refine the protein in COOT. If I try to refine the DNA, a window pops up with the following statement: No Restraints Found! Non-existent or minimal description of restrained residues. How do I create a non-minimal mmCIF dictionary for just the DNA? I am relatively new to crystallography and would appreciate any guidance.
Brittney
