[gmx-users] About Bond breaking and usage of constraints

[vidhya sankar]

Dear justin ,
                        Thank you fro your Reply
          

                     I am doing MD for  Cyclic poly Peptide With ARG as N-termina and PRO as C-terminal .  I have run pdb2gmx it is oak.  . I have solvated and added ions successfully
But when i Run the Energy Minimization The Bond between  N atom of  ARG and C atom of PRO is broken . 

What  Should i Do To keep this Bond Through entire EM and MD ?    Can i Use Constraints option in topology file

 if i need to use  Constraints option What is the  Syntax  ?  Also The Bond is not constructed between N atom and C atom of terminal ARG and PRO residues in Topology