Dear all,
I have been searching in the web and VMD Tutorials how to select a range of atoms by using VMD however I have just found only how to select a range of residues for example residue: resid 13 to 15
However I have not found information about selecting a range of atoms eg. atoms 1340-1642 of my protein. I am interested to do this due to the numbering of my chain, in which residues numbers are repeteated but not atoms.Thus, I am interested to select only a range of atoms.
Does anyone have any suggestion?
Thanks in advance and best regards
selections are done by
set sel [atomselect top "protein and resid 10 to 20"]
For choosing a set of atoms, you can write in the TKconsole
set sel [atomselect top "serial 1340 to 1642"]
Mrs/Miss Martínez-Archundia,
You can use Avogadro (https://avogadro.cc/) - it is very easy for operation.
As mentioned before, the same syntax as for resids can simply be used for atom numbers. There are two numbering schemes for atoms in VMD, one starts numbering at 1 (serial) and the other at 0 (index).
Selecting atoms corresponding to e.g. the PDB would look like
serial 1 to 100
You can also select whole chains, or combine resids and chains
chain A
chan A and resid 1 to 100
Dear all, thank you so much for your answers. They were very helpful.
Thanks again and have a good day :-)
in vmd you can also select atoms. such as index 1340 to 1642 and protein.
Best wishes
Hello everybody
And how about selecting with atomselect atoms indexed as 15, 20, 23 and several others? Thanks in advance!
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