Hi, I have a low-resolution EM map and have been having difficulty modeling a 50mer piece of curved double-stranded DNA into. The global resolution is 6.5 A and the local resolution for the DNA is lower. I started by making an ideal B-form DNA from ‘other modeling tools.’ The map for the DNA curves slightly throughout the length. If I try to real space refine the DNA into the map it doesn’t work well. The base pairs don’t stay together and the DNA backbone ends up getting distorted. I’ve tried adding base pairing restraints with ‘Extensions > User-defined Restraints > DNA B form bond restraints’ but when I try to real space refine after this I run into the same issues. I’m using Coot 0.8.9.2. Is there a better way to model this?
Thanks, Brady ___ Brady Travis Schumacher Lab Department of Biochemistry Duke University ######################################################################## To unsubscribe from the COOT list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=COOT&A=1
