Hi,
not certain to understand the question. In chimera, you can create axis
(for example in alpha helix) or directly draw one and do the angle
measurement between differents axis. I imagine that you can create the
"same axis" in both of your monomer and measure the angle between these
axis.
Nicolas
Nicolas Foos
PhD
Structural Biology Group
European Synchrotron Radiation Facility (E.S.R.F)
71, avenue des Martyrs
CS 40220
38043 GRENOBLE Cedex 9
+33 (0)6 76 88 14 87
+33 (0)4 76 88 45 19
On 17/11/2016 23:48, Paul Emsley wrote:
On 18/11/2016 03:57, chemocev marker wrote:
Hi All
I am interested to measure the symmetry axis of individual sub-unit
(chain A & chain B)
along with the symmetry axis of the heterdimer (AB). Each chain is
also 2 fold axis, and I
can measure by removing 1 chain and measure for the other and then
combine all the symmetry
axis in the 1 PDB file. Is there is a way to do it with out removing
the either chain.
I'm not sure that I fully understood the question, but you could try
Coot's
superpose_with_atom_selection, where you can specify the residue
selection for the superposition
e.g.
Calculate -> Scripting -> Python
superpose_with_atom_selection(0, 0, '//A/1-200', '//A/201-400', 1)
will produce output like this:
| 0.9705, -0.0469, -0.2365|
| 0.2359, 0.3887, 0.8907|
| 0.05015, -0.9202, 0.3883|
( 37.8, -17.18, 13.83)
Rotation - polar (omega,phi,kappa) 81.2326 -171.0041 68.0547
Rotation - euler (alpha,beta,gamma) 104.8719 67.1530 -93.1198
Translation - Angstroms 37.8021 -17.1809 13.8283
INFO: core rmsd achieved: 0.4517 Angstroems
number of residues in reference structure: 200
number of residues in moving structure: 200
number of residues in aligned sections (reference): 200
number of residues in aligned sections (moving): 200
number of aligned residues: 200
Paul.
