[chimerax-users] .chimerax and PhosphoSitePlus

[Daniel Gurnon]

Hi all,
I'm interested in visualizing post translational modified positions in
Chimera or ChimeraX, using the script generated by PhosphoSitePlus (PSP).
I'm not able to get it working though, so I hope you can help:

Here's an example of a page with an available Chimera script.
<https://www.phosphosite.org/proteinAction.action?id=4103&showAllSites=true>
>From what I read in the documentation
<https://www.rbvi.ucsf.edu/chimera/1.10/docs/webservices.html> about web
services, I should be able to click the script, and it will open in a
locally running instance of Chimera. However, in Chrome, my only option is
to download the script.

When I download and then try to open the script in ChimeraX (v 1.1), it
tells me the ".chimerax" file type is not recognized. When I try to open it
in the original Chimera (v1.15), I get the infinite spinning wheel of
rainbows. These things occur whether or not I have the reference PDB
structure loaded. Just to see what would happen, I also tried pasting the
first command from the .chimerax file (*setattr a label Ser-89 :88.A at OG*)
into Chimera and ChimeraX. The command executed successfully in Chimera,
but in ChimeraX, I get the error

setattr a label Ser-89 :88.A at OG
Expected a keyword

Thanks in advance for the assistance,
Dan
____________________________

Daniel Gurnon, Ph. D.
Associate Professor of Chemistry and Biochemistry
DePauw University
Greencastle, IN 46135
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