Hello Sir, I want to ask a question about missing residues, for which coordinates are not defined in the PDB file. I have this protein structure and in one of the loop there are some residues whose coordinates are not defined in the file. When I did pdb2gmx for preparing the topology, it joined the end of this loop and renumber ed the whole chain there after. I searched on net and it was written that missing residues should be modelled somehow before running simulation, but in my case i cant model this loop having missing residues because these are very flexible and i cant define their coordinates through modeling, So, if there is someway through which these residues remain missing and still I can go ahead with simulation ? Thanks in advance. Regards
-- Sonali Dhindwal
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