id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
8013	Compare alphafold database structure conformations for all sequences similar to a query	Tom Goddard	Tom Goddard	"It might be informative to see the different conformations AlphaFold (or ESMfold) predicts for all sequences similar to a query sequence.  I could use the kmer-search (or BLAST) to find all AlphaFold database similar sequences, then align and cluster all the predicted structures and then show cluster representatives as sequence of models.  Probably need to ignore the low confidence (disordered) regions when aligning and clustering.  Could order the models by how close they are in structure.  I would guess there might be up to hundreds of conformations.

This could be helpful in a few ways.  It could indicate actual alternate conformations of a protein of interest.  Or it could indicate uncertainty in the AlphaFold predictions.

It would also be useful to have a sequence alignment associated with this set of conformation representatives.

"	enhancement	assigned	moderate		Structure Prediction								all	ChimeraX