id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17112 Add alphafold error plot menu entry to select residues when dragging box matthias.vorlaender@… Tom Goddard "Matthias asked how to select residues when dragging a box on a PAE plot. Would be helpful if there were separate color and select menu entries. Hi Matthias, Right click on the ChimeraX PAE plot to show a menu and turn off ""Dragging box colors structure"". Then dragging a box will instead select the parts of the structure. Not obvious. Probably there shoudl be two menu entries to separately control coloring and selecting. I made a ChimeraX request for that. By the way the ChimeraX daily build handles PAE from Boltz and Chai (variants of AlphaFold 3) better (recognizes numpy PAE files and the file names used by those programs). Tom On Mar 17, 2025, at 10:16 AM, Vorländer,Matthias Kopano via ChimeraX-users wrote: Dear ChimeraX team, I love the alphafold tools in ChimeraX, and have a small suggestion to make it even better. Currently, when associating a PAE plot from a JSON file, you can drag the mouse in the PAE plot to color the corresponding residues (magenta and lime), but the residues do not become selected (although the color command gets printed in the log). I think it would be helpful if there was an option (or default behavior) to return a selection in addition, so that the selected region could be saved as a named selection, the display style changed ect… Or am I missing anything? Many thanks in advance, Matthias" enhancement assigned moderate Structure Prediction all ChimeraX