Hi All,
I calculated the rmsd for my protein of interest by aligning it to the pdb
generated after equilibration. The value of rmsd is very high when i
calculated for backbone atoms (i.e. Calpha, N) in the range of 6-8. The same
calculation using amber ptraj module gave me the rmsd value of around one
throughout the production phase.
Now I am wondering which one should I take for my further consideration.
Hirdesh
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Received on Mon Oct 04 2010 - 23:00:03 PDT
