[chimerax-users] "No known/registered attribute seq_conservation" in conservation tutorial

[Etowah Adams]

Hi all,

I am following the coloring sequence by conservation tutorial
<https://www.rbvi.ucsf.edu/chimerax/data/conservation-coloring/conservation-coloring.html>
but ran into some unexpected behavior. I used the the exact commands, but
when I ran the "color byattribute seq_conservation" command, I got an
error, "No known/registered attribute seq_conservation." The association
was successful so I don't know why the seq_conservation attribute is not
being set. See below for the log of my commands.

I also tried using my own structure and msa but ran into the same "No known
/ registered attribute seq_conservation" issue, despite associating with 0
mismatches.

Am I somehow missing something, or is something wrong? I am using a version
of ChimeraX downloaded in November 2020, running on Windows 10.


> *open 121p*

*121p title:*
> Struktur und guanosintriphosphat-hydrolysemechanismus des C-terminal
> verkuerzten menschlichen krebsproteins P21-H-ras [more info...]
>
> Chain information for 121p #1
> Chain Description
> A H-ras P21 protein
> Non-standard residues in 121p #1
> GCP — phosphomethylphosphonic acid guanylate ester
> MG — magnesium ion
> 121p mmCIF Assemblies
> 1 author_defined_assembly
>
> *hide solvent*
> *style ligand ball*

Changed 32 atom styles
> *open
> https://www.rbvi.ucsf.edu/chimerax/data/conservation-coloring/121p-consurf.aln
> <https://www.rbvi.ucsf.edu/chimerax/data/conservation-coloring/121p-consurf.aln>*
> Summary of feedback from opening //
> www.rbvi.ucsf.edu/chimerax/data/conservation-coloring/121p-consurf.aln

fetched from https
> notes Fetching 121p-consurf(1).aln from
> https://www.rbvi.ucsf.edu/chimerax/data/conservation-coloring/121p-consurf.aln
> Downloaded 121p-consurf.aln to C:\Users\selua\Downloads\121p-consurf(1).aln
> Alignment identifier is 121p-consurf(1).aln
> Associated 121p chain A to Input_pdb_SEQRES_A with 0 mismatches
> Opened 150 sequences from 121p-consurf(1).aln
> *color byattribute seq_conservation*

No known/registered attribute seq_conservation
>

[image: image.png]

Thanks for any help,
Etowah
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