Hi Tim - There is a script on the PyMOL Wiki that does just this: http://pymolwiki.org/index.php/ColorByRMSD.
Cheers, Jared -- Jared Sampson Xiangpeng Kong Lab NYU Langone Medical Center 550 First Avenue New York, NY 10016 212-263-7898 http://kong.med.nyu.edu/ On Jan 29, 2014, at 12:43 PM, "Colussi, Timothy" <timothy.colu...@ucdenver.edu<mailto:timothy.colu...@ucdenver.edu>> wrote: I was wondering if anybody knows of a program or script that you can run that will calculate local RMSDs between 2 superposed pdbs and color based on those local RMSDs or allow for the ability to color based on RMSD? I have a molecule that is similar in some aspects to another molecule but also very different in others and thought this would be a good way to show this graphically. Tim Colussi ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. =================================
