Sorry, Miguel, if that looked anything but messy.
I've broken it down and annotated the script a bit so you can see what makes it do
what it does. Some are rasmol-derived commands; the 'move' is chime script, if I
recall, which handles rotations, moves, and slabs.
--Phil
SCRIPT="
reset;
centre atomno=2827;
spacefill on;
rotate y 21;
# let the slab cut through the molecule while spinning
set slabmode reject;
slab 0;
move 0 0 1080 0 0 0 0 100 24;
# rotate 90 degrees over the course of 2 sec
move 0 0 90 0 0 0 0 0 2;
#give each segment of peptide chain its color
set ribbons 3;
select 1-59; colour ribbon white; ribbons;
select 60-74; colour ribbon magenta; ribbons;
select 75-80; colour ribbon cyan; ribbons;
select 81-119; colour ribbon yellow; ribbons;
# give the potassium its spacefilling balls and wireframe
select within(3.5, *.k); wireframe 40; spacefill;
select *; wireframe off;
# give O, N, C, and S spacefilling balls and rotate 45 degrees on axis
select oxygen or nitrogen; spacefill 346;
select carbon or sulfur; spacefill 394;
move 0 0 45 0 0 0 0 0 1;
# reduce O, N, C, and S balls by 10% and rotate 45 degrees on axis, and so on...
select oxygen or nitrogen; spacefill 308;
select carbon or sulfur; spacefill 350;
move 0 0 45 0 0 0 0 0 1;
#...
#now they're small, exposing the ribbons--turn off spacefill
select oxygen or nitrogen or carbon or sulfur; spacefill off;
move 0 0 45 0 0 0 0 0 1;
# rotate the whole molecule 90 degrees to see it from side again
centre atomno=2827;
move -90 0 0 0 0 0 0 0 2;
# let the people see the pretty ribbons spin
move 0 270 0 0 0 0 0 0 6;
# now make the spacefilling atoms reappear while spinning, starting small...
select oxygen or nitrogen; spacefill 38;
select carbon or sulfur; spacefill 44;
move 0 45 0 0 0 0 0 0 1;
# increment the sizes, still spinning
select oxygen or nitrogen; spacefill 77;
select carbon or sulfur; spacefill 88;
#...more increments until
# 'full' size
select oxygen or nitrogen; spacefill 346;
select carbon or sulfur; spacefill 394;
move 0 45 0 0 0 0 0 0 1;
select all; spacefill on; ribbons off;
move 0 180 0 0 0 0 0 0 4;
# while spinning, move back into the distance, wait, then jump back
move 0 270 0 -100 0 0 0 0 6;
delay 1;
slabmode off; move 0 0 0 100 0 0 0 0 1
;">
----- Original Message -----
From: Miguel <[EMAIL PROTECTED]>
Date: Thursday, October 30, 2003 12:15 pm
Subject: [Jmol-users] KcsA animation
> > http://www.soils.wisc.edu/virtual_museum/kcsa/index.html
> > and try the button labelled "Animate KcsA!!"
> > ...
> > I'd like to be able to do at least the same w/ jmol, if not
> > better...(such as scaling the atom sizes proportionately and
> smoothly,> instead of incrementally?)
>
> Certainly something we should work towards.
>
> Do you have a simpler script you can recommend for starters?
>
> Miguel
>
>
>
>
>
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