GROMACS version:2020
GROMACS modification: Yes/No
Here post your question I applied md simulation on my dna-ligand system but I prepared input files using charmm-gui.my simulation has finished sucessfully.for analysis I have a problem
my defaults groups not include DNA or backbone so,how to create DNA groups
Could anybody give me some option inorder to crete DNA groups
Merge groups 2-5 to create the full DNA, from which you can define the backbone however you like (there are different conventions for this with DNA, so it’s up to you).