[gmx-users] Protein-Ligand complex MD

[Nikhil Maroli]

there are lots of threads in this mailing list regarding and in gromacs 
doc also it is mentioned.please go though those you will get an idea

http://www.gromacs.org/Documentation/Errors#X_particles_communicated_to_PM
E_node_Y_are_more_than_a_cell_length_out_of_the_domain_decomposition_cell_
of_their_charge_group


check your mdp file and co-ordinates 
minimize again