getting the center of mass of each part of a molecule
On Thursday, May 18, 2017 at 3:55:01 AM UTC-7, qasi... at gmail.com wrote:
> @jladasky and @Gregory:
> 3) Divide the ligand molecule into two parts (except for ligand heavy atom closest to the COM of the whole ligand) based on the COM previously calculated.
OK, now I agree with Gregory Ewing. This part of your problem is incompletely defined. Divide the molecule into two parts... how? You need to choose a plane in 3-dimensional space which cuts your molecule in two. Describe the criteria that this cut needs to satisfy.