Hi Bing, you can use the latest version of psico, it provides an "angle_between_helices" function, which in combination with "plane_orientation" can calculate angles between planes.
Download: http://pymolwiki.org/index.php/Psico Example: fetch 1ubq, async=0 select ring1, 45/CG+CD1+CD2+CE1+CD2+CZ select ring2, 59/CG+CD1+CD2+CE1+CD2+CZ import psico.orientation angle_between_helices ring1, ring2, plane_orientation Best, Marlene -- Marlene Holder, née Grünwald, PhD Postdoc NYULMC Skirball Institute of Biomolecular Medicine 540 First Avenue, 3rd floor, Lab17 New York, NY 10016 2014-09-25 17:28 GMT-04:00 Wang, Bing <[email protected]>: > Hi everyone, > > I want to tell an angel between two aromatic planes which comes from two > different molecules and cross each other. > > First, I tried the easier ways. I presume these two aromatic rings are in > the perfect planes, that is why I tried plane_wizard.py and > draw_plane_cgo.py which work very well. However after I got two plates by > plane_wizard or draw_plane, I don't know how to measure the angle between > these two plates. I also don't know whether I could get the angle I wanted > from these two ways. I tried vector_angly.py which cann't loaded into pymol > properly. If it could, how can i do to get the angel from these two plates I > drew. Solutions? Since I am in the beginner state, please show me details > which i could follow step by step. > > Second, If these two aromatic rings are not in the perfect planes, how can i > find the best fit planes? And then find the angle between the best fit > planes? I tried svdplos.py and makeCGOplates.py which are downloaded on > line. unfortunately both of these can't be loaded into pymol properly. > Solutions? > > Thanks! > > Bing Wang
