From: Chetan Mahajan (
Date: Tue Feb 18 2014 - 19:18:14 CST


I open .gro file in VMD, move the residues I want to particular position
and then save coordinates in .pdb file. Now, if I pick certain atoms using
VMD tool, i get their description such as atom index and coordinates.
However, the corresponding .pdb file has the atoms with same index, but
different coordinates. Why are the visual and in-file coordinates not
matching up?