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Dear All
I asked this question in Martini's forum, but tile now no answer, so I had to ask it here. excuse me.
I did an atomistic peptide simulation. The residues and positions of all atoms in this peptide created by my self, I mean I didn't download the pdb file from <www.pdb.org>. at the end of atomistic simulation I have .pdb and .gro files that show the minimized structure of the peptide.
Now I have a question: Can I use the last pdb file for a CG peptide? Can I use atom2cg.awk and seq2itp.pl in this case?
Thank you
Kargar
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