Dear gmx-users,
I'm having some problems using the flag "-ter" of
pdb2gmx.
The syntax I'm using is the following, for a protein dimer:
pdb2gmx -f protein_dimer.pdb -o start.gro -p start.top
-ter
Instead of prompting a menu with the choice of different chemical groups,
the flag is ignored by gromacs, which creates the ouput files as usual.
What I'm attempting to do is to create a C-terminus without a carboxylic
group.
Best regards
Alberto
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