[Chimera-users] Selecting bonds/pseudobonds with a cutt-off distance

Yasser Almeida Hernández yasser.almeida at gmail.com
Fri Aug 23 07:47:49 PDT 2019

Thanks a lot!

On 23.08.2019 16:46, Elaine Meng wrote:
> Hi Yasser,
> Sorry, Chimera does not include a command or tool to select bonds or pseudobonds by length.  There might be something similar in the Chimera plugins on the web (developed by others), say Xlink Analyzer, but I don’t know for certain:
> <http://www.rbvi.ucsf.edu/chimera/plugins/plugins.html>
> If you use ChimeraX instead, it can be done for pseudobonds (but not bonds) with the “select” command and the “minimumLength” and/or “maximumLength” option, see:
> <http://rbvi.ucsf.edu/chimerax/docs/user/commands/select.html#new>
> In ChimeraX you can also display an interactive histogram of pseudobond lengths with the “crosslinks histogram” command, as shown here for H-bonds:
> <http://www.rbvi.ucsf.edu/chimerax/features.html#hbond-histogram>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>> On Aug 23, 2019, at 4:31 AM, Yasser Almeida Hernández <yasser.almeida at gmail.com> wrote:
>> Hi all,
>> how can I select bonds/pseudobonds with a cutt-off distance, say bonds/pseudobonds with more than/less than X?
>> Thanks in advance,
>> Yasser

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