What do you mean by move a chain from position A to position B? Do you have two sets of atom coordinates for the same atoms, and you want to rotate the first set of coordinates about one atom position so that the sum of the squared distance between the other corresponding atoms is minimized? ChimeraX has nothing that does that. The matchmaker and align commands minimize the sum of the squared distances between corresponding atoms in two structures but don't allow you to keep one atom fixed.

On Oct 5, 2026, at 8:08 PM, Sen, Anindito via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Hi,
What ChimeraX command can I use to rotate a PDB chain from position A to position B while keeping one end of the chain fixed at its original position?

Regards
Anindito Sen. Ph.D
Microscopy and Imaging Center
Texas A&M University
301 Old Main Dr
College Station, TX 77843-2257

Office: ILSB Room 1133
Tel. 979-458-9881
fax: 979-847-8933
http://microscopy.tamu.edu

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