I am trying to fit a cryo-EM map of a DNA protein complex (3.3 A) using the
    map to model
    in Phenix 1.18.2.3874,  with a DNA sequence input in fasta format and the
    map as a .ccp4 file.
    However the output  model fitted in the map I am getting is many fragmented
    PDB files and only one chain of DNA.
    What is the best way to get a higher fraction of the DNA model fitted into
    the map, can I switch off the segmentation of map and get both strands
    fitted into the map. Or the only option is to manually build?
    Thanks for your help
    Regards
    Manoj Saxena