After making Md simulation and getting the rmsd,gyration.. analyzing graphics I
looked at the VMD.Then I saw that the 2 chains are getting splitting at a
time.And then got together.So I could understand why the graphics are so
bad.Then I read the manual.It says I should use -merge in pdb2gmx line if you
have disulphite bridges.My molecule has 2 chains that has disulfite
bonds..Anything else that you know about this except -merge?
Thank you
özge
---------------------------------
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