From: Albert Sun (
Date: Mon Jul 19 2004 - 11:51:50 CDT

Hi, Olaf

Thanks! move atom can be easily done by kotkey ' 5'.
In order to make an atom invisiable,
I tried to do step 1, it is OK and I got
info) index: xxxx.
But how to do step 2? to select all atoms that are not the picked atom:
not id xxxx ?


Olaf Lenz <olenz_at_Physik.Uni-Bielefeld.DE> wrote:

Albert Sun wrote:
> How to pick atoms, and remove them or change the position of the
> selected atoms?

You can move an atom/residue/etc. via

VMD Main Menu->Mouse->Move->Atom (hotkey '5')

You can't really remove an atom, as this would change the molecule's structure,
and the structure is fixed (is that right?). What you can do, however, is to
make an atom invisible. For that you simply need to select all the other atoms,
for example:
1. press '0' and click on the atom. You'll get something like:

Info) picked atom:
Info) ------------
Info) molecule id: 0
Info) name: C4
Info) type: C4
Info) index: 279
Info) resname: A
Info) resid: 14
Info) chain: B
Info) segname:
Info) x: 25.724001
Info) y: 9.819000
Info) z: 28.396000

2. select all atoms that are not the picked atom:

not id 279


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