I have a slightly different answer using (almost:) only PyMOL commands:
# take 1acb as example
fetch 1acb, async=0
import numpy
# center is [x0,y0,z0]
x0,y0,z0=[1,2,3]
alldist = []
iterate_state 1, 1acb,
alldist.append(numpy.sqrt(numpy.sum([(x-x0)**2,(y-y0)**2,(z-z0)**2])))
# assign dist to b-
Hi Robert,
I did something like this in the past. Check out the ramp_new command
page on the PyMOLWiki for an example
(http://pymolwiki.org/index.php/Ramp_new#Elaborate_examples) for
arbitrary functions.
Here's a very quick way to color a surface by distance from a given
point--here I chose the o
Hi Robert,
you can set the distance between each atom and the center as b-factor,
and then use spectrum (or spectrumany [1]) for coloring.
I wrote a small python script that will do that, see attachment.
Example (in PyMOL command line):
run distancecoloring.py
centerdistance2b (all)
spectrum
Dear community,
I was searching the internet for several days now to find out how to perform a
distance dependent coloring in pymol.
The idea is to color the surface of a viral (spherical) structure. I would like
to define the xyz-coordinates of the center of the viral structure an color all
r
