Thanks Angel,
Circle has limited capabilities, unlike cylinder, for plane presenting,
but atomno=X is definetly something to practice with.
We have two more questions, we are looking for jmol functions:
a) function that gets the effect of: right click on jmol applet -> Style ->
Labels -> With Atom Number;
b) function that gets the effect of: right click on jmol applet -> Style ->
Scheme -> Wireframe
Ball
and Stick (which is the normal view).
are there jmol functions that can do these things?
something we can put behind the button/checkbox?
Thank you very much for your help,
Ira and Yael.
2009/8/30 Angel Herráez <[email protected]>
> Hello
>
> > We've been changing the coordinates and it changes the position of the
> plane,
> > just wondering ifthere is some constancy in it,
>
> Certainly there is! You will need some math to figure out the axis you
> need.
>
>
> Maybe you can do it easier using CIRCLE instead of CYLINDER.
> Try the attached model with these commands:
>
> load ala.mol2
> draw plane1_disk circle width 2.2 {atomno=5} {(atomno=10,atomno=11)}
> draw plane2_disk circle width 2.2 {atomno=5} {(atomno=10,atomno=12)}
> draw plane3_disk circle width 2.2 {atomno=5} {(atomno=11,atomno=12)}
>
> or
> load ala.mol2
> draw plane1_disk circle width 2.2 {atomno=5} {16.819 -9.437 -0.764}
> draw plane2_disk circle width 2.2 {atomno=5} {15.197 -9.615 -0.785}
> draw plane3_disk circle width 2.2 {atomno=5} {15.918 -8.579 -1.821}
>
>
> The first coordiante is the center of the circle/disk, the second is a
> point giving the
> orientation normal to the disk (in the first set, the middle point between
> two atoms; in the
> second, just a coordinate, either calculated or picked from an atom)
>
>
>
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