Hi Theresa,
If you load both of the proteins in Coot, you can align/superpose them using least squares fit over a specific residue range. The rmsd will be listed in the terminal window if you scroll up a bit. Hope this helps. - Greg ------------------------------------------------------------------------------- Greg Costakes PhD Candidate Department of Structural Biology Purdue University Hockmeyer Hall, Room 320 240 S. Martin Jischke Drive, West Lafayette, IN 47907 -------------------------------------------------------------------------------- ----- Original Message ----- From: "Theresa Hsu" <[email protected]> To: [email protected] Sent: Monday, July 23, 2012 11:06:23 AM Subject: [ccp4bb] Structure alignment Dear all I have two proteins in PDB each with two subunits. One of the subunits can align well in both. How do I calculate rmsd for the aligned subunits and the other non-align subunits *separately*? Thank you.
