The zebrafish Rad54 structure is a 648 residue fragment spanning from residue 90 to the C terminus of the native protein (pdb code 1Z3I 1).

Within the fragment crystallised, 56 residues at the N-terminus and 79 residues at the C-terminus are specific to the Rad54 subfamily and pack against the core structure to extend it.

The two recA-like domains in the structure are oriented equivalently to other known helicases.

Although no ADP or ATP is present, a sulphate ion is bound consistent with the expected location and interactions of the ATP gamma phosphate.