Hi, You can use the pair-ftt function to better overlay the ligands. You can also display the torsion angles:
In 3-button editing mode, hold control down (PC) and right click on the bond in question. Not sure how to do this command line Hope this helps J From: puneet garg <punnetg...@gmail.com> Sent: Friday, 12 October 2018 10:34 AM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Comparing same ligands from different proteins Hi, I have two proteins with same oligosacharide (triose) bound to them. I want to compare the superposition of the bound ligands. When I superpose the proteins, the ligands superpose partially. Is there any way I can calculate all the torsion angle different of oligosacchrides. Thanks -- Puneet Structural Biology Lab Biotechnology Dept. IIT Madras Chennai-600036
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