Hi Jared,
As I have only C-alpha coordinates. I used
set cartoon_trace, 1
Then I can see a connected smooth ribbon like diagram. I can change the
color as follows:
color blue resi 10-23
and this working for all identical chains simultaneously. But, the problem
is when I am using
alter resi 10-23
Hi Hena,
if you only have CA atoms, you probably need this as well:
# assign secondary structure
alter all, ss="L"
alter resi 10-36, ss="H"
alter resi 50-56, ss="S"
# show cartoon
set cartoon_trace_atoms
as cartoon
# and eventually...
set cartoon_discrete_colors
Cheers,
Thomas
Sampson, Jar
Hi Hena -
You can type the following commands in the command line of the pymol graphics
window, one at a time.
color red, ss h
color yellow, ss s
color white, ss l+''
If you don't mind the loops being green, you could also use the first preset
under the Color menu for your object.
[C] > by
Hi,
Sorry, I forgot to mention that, I have only C-alpha coordinates of 60
chains in one pdb file.
I have 60 identical chains. Each chain is about 140 residues. Residues from
10-36 is helix and residues from 50-56 is beta sheet. I want to prepare a
cartoon diagram displaying helix and sheet in re
Hi,
I have 60 identical chains. Each chain is about 140 residues. Residues from
10-36 is helix and residues from 50-56 is beta sheet. I want to prepare a
cartoon diagram displaying helix and sheet in red and yellow color
respectively and the rest part(loop) in white. I need to do this for all 60
c
