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Why CA and CB H atoms in aminoacid residues are not included in topology when gromos FF is used? But, H bonded with N is there in .top and .gro file.
Because it is a united-atom rather than all-atom force field.
If you are unsure on the difference between these then I strongly suggest that you do some background reading on force fields before deciding upon which one(s) to use for simulating your system of interest.
Equally important to understand is that each force field has defined settings that should be used for many of the simulation parameters specified in the mdp file and so if you swap force field then you must change to the correct parameter settings for that new force field.
Cheers
Tom
Thank you Tom