Dear All, I want to get a specific view set up in PyMOL based upon the coordinates inthe PDB file. I have calculated where the center should be (i.e. c.o.m. of the coordinates) and then calculated the plane a*x + b*y + c*z = 1 for three points to get the plane I want for the image, and the normal to that plane, i.e. normalized vector (a,b,c). I want the view to look at the atoms up or down this normal.
I can't figure out how to calculate the orientation matrix I want, can anyone tell me how? See the values below: center = 47.583, -7.099, -11.403 normal = ( 0.23972, 0.79028 0.56391 ) The approximate orientation matrix, from alignment by eye set_view (\ 0.654, -0.692, 0.305,\ -0.244, -0.574, -0.781,\ 0.716, 0.437, -0.544,\ 0.000, 0.000, -120.000,\ 47.583, -7.099, -11.403,\ 70.000, 170.000, 0.000 ) Any help greatly appreciated Richard Baxter