Well, it certainly could be done by a custom Python script, e.g.: from chimera import openModels, Molecule, selection sel_atoms = [] for m in openModels.list(modelTypes=[Molecule]): for a in m.atoms: x, y, z = a.coord().data() if x0 <= x <= x1 and y0 <= y <= y1 and z0 <= z <= z1: sel_atoms.append(a) selection.setCurrent(sel_atoms) This selection is working on the original coordinates, i.e. as provided by the input source. If you want to include rotations/translations that occurred in Chimera, you would use the .xformCoord() method instead of the .coord() method. But perhaps if you described why you need to select atoms within a certain Cartesian box, we could provide better help. —Eric Eric Pettersen UCSF Computer Graphics Lab

On Oct 31, 2016, at 11:37 AM, Cherry Dons <cherrydons@gmail.com> wrote:

Hi Chimera Developers,

This is Dengpan, one of chimera users. I have a question about how to select atoms within a region? For example, I I want to select atoms within a rectangular region x0 to x1, y0 to y1, z0 to z1.

Could you please give me a hint how to do it? Thanks.

Dengpan Dong

-- Department of Materials Science and Engineering, University of Utah _______________________________________________ Chimera-users mailing list: Chimera-users@cgl.ucsf.edu Manage subscription: http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users