[Chimera-users] Higher order
goddard at cgl.ucsf.edu
Tue Jan 13 08:44:28 PST 2009
Multiscale models assigns colors by chain by default. All copies of
chain B will initially get the same color. All copies of chain C get
another color. If you wish to change those colors, select a chain
surface, click the select Copies button, then use the Color button or
the Actions / Color menu (in Chimera 1.3 or newer).
Maybe the case you are thinking of is where chains B and C are really
copies of the same protein with different conformations. If you select
the surface for chain B you can then select all chains which have
identical amino acid sequences with shortcut xc, then color those. Now
if you have several chains that are the same protein but have different
sequences (maybe some residues not observed in some of the copies) then
they are not identical. Then you'd just have to hand-select one copy of
each chains known to be the same, press the Copies button and color.
This is the situation with rice dwarf virus 1uf2. Might be nice to have
the ability to extend selection to all chains that have the same chain
name (given in PDB file though not currently used in Chimera).
hsosa at aecom.yu.edu wrote:
> Is it possible to assign colors by chain to the surfaces created my the
> multiscale models tool ?
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