id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
6472	Show AlphaFold predicted aligned error (PAE) plots	Tom Goddard	Tom Goddard	"Want to show residue-residue predicted aligned error (PAE) calculated by AlphaFold.  This matrix of distance values indicates for every pair of residues whether AlphaFold thinks its predictions has the two residues in the correct relative positions.  This is useful for judging when AlphaFold predicts the wrong domain positions.  Want to show a 2D plot (image) color coded by PAE value and be able to drag a box on the plot and color the associated residues.  This is the same capability available on AlphaFold database pages.

Also want to be able color domains defined by clustering residues that the PAE matrix suggests are in the right relative position as detailed in a request from Tristan Croll #4966.

Also should be able to fetch the PAE JSON files from the EBI AlphaFold database."	enhancement	assigned	moderate		Structure Prediction				Elaine Meng Tristan Croll				all	ChimeraX