Hello,
I have ran some MD with GROMACS v3.3.3, and used the command "trjconv -f
traj.xtc -o traj.pdb -s file.gro" to generate a pdb movie.
My simulation includes charged atoms in some residues, but the output pdb
does not seem to include the formal charge data.
My question is, is this a known issue (that GROMACS does not print the
charge info. in the pdb), or, perhaps, it is a symptom of something I did
wrongly?
(its not a big deal, but still - it would be nice to have this data directly
in the movie)
Thank you for the help, Omer.
Koby Levy research group,
Weizmann Institute of Science.
http://www.weizmann.ac.il/sb/faculty_pages/Levy/
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