I am using seq2psf for a peptide with hydroxyproline, disulfide bonds,
and an amidated C-terminal.
I call the script this way: seq2psf -protein -disulfide_bond 2:8 -
disulfide_bond 3:12 -amidate_cterm peptide.seq
What I get are these errors:
%WDSUB-ERR: symbol not found:
improper CT CT CT OH $kchu
^^^^^
%energy-constant=-ERR: real number expected:
improper CT CT CT OH $kchu
^^^^^
%PATCH-ERR: angle -C +N +HN not found
%PATCH-ERR: improper +HN +N -C -CA not found
It does, however, give me a psf file, but I would like to clear these
errors before I continue. I have no idea what $kchu is or where the
script is looking and finding the improper CT CT CT OH $kchu. I
believe the patch-err is from the hydroxyproline.
Thanks in advance.
