I'm not sure what name phenix or ccp4 like, but looking in
$CNS_TOPPAR/dna-rna.top, I see this line:
ATOM C5A TYPE=CC3E CHARGE=0.00END
so CNS likes C5A. If you want CNS to play well with other programs,
just change that line in your topology file to
ATOM C7TYPE=CC3E CHARGE=0
Dear Friends,
I am tired of renaming an atom name every time I want to switch among
the programs cns, phenix and ccp4 particularly for a carbon atom C5A of Thymine
given below. What name I should give to this atom specially for cns? Is it C7
or C5A or C5M?
ATOM 1541 P THY K 5
