Hello experts Thanks for your insights. For one of the structures, it turned out to be a rendering issue by pymol like matt pointed out. For the other, the residues are clearly in a less than ideal position. Even if I see deviation from the RMSD plots, i cannot be sure that the structure were refined ideally at those positions ( those are not my structures, i just have the pdb files from my collaborator).
Thanks again, Mahesh P.S from what all of you are saying it sounds like those changes are not real, if I find that they could be Ill let everyone know. >
