id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
501	bysequence or byentity keywords	Elaine Meng	Tom Goddard	"I find the ""bysequence"" and ""sequence"" keywords (in commands ""color"" and ""select"") to be somewhat mysterious or misleading.  In ""color"" it suggests (to me) coloring by residue type, like the NDB coloring of nucleotides and similar schemes for amino acids.  In ""select"" it suggests I can select some sequence, e.g. ""select sequence RGD"" would actually select any Arg-Gly-Asp sequences in a structure.  

I realize that the sequence is used to identify the same biopolymer ""macromolecule entities"" (as the RCSB PDB calls this concept), but suggest using keywords:

bysequence -> byentity
sequence -> entity

This would apply to ""color"",""select"" and also atomspecs if this concept were implemented as a selector as suggested in #480.

Or, if we cannot part with the bysequence/sequence keywords, could byentity/entity be added as synonyms?"	enhancement	closed	major		Command Line		fixed		Conrad Huang Eric Pettersen Greg Couch				all	ChimeraX