Hi Marta, There is currently no flag to suppress this behavior. There really shouldn’t even be a flag — it should just automatically revert the Greek characters to plain text when writing mmCIF or PDB files. I will open a ticket in our bug-tracking database requesting this change with you cc’ed so that you will be notified of updates. It might take us awhile to find the time to fix it. --Eric Eric Pettersen UCSF Computer Graphics Lab

On Apr 25, 2024, at 4:00 AM, Marta Martinez via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Hi guys,

I just downloaded a pdb file from AlphaFold DB (AF-P69905-F1-model_v4.pdb). After modifying it with ChimeraX (version 1.6.1 (2023-05-09)) I've saved the modified atomic structure as a cif file. The original pdb file contains this line:

COMPND 2 MOLECULE: HEMOGLOBIN SUBUNIT ALPHA;

After saving the file as cif format ALPHA is not longer a string but a GREEK character:

_entity.pdbx_description "hemoglobin subunit α"

Is there any flag in the save command that disables this conversion from plain ASCII to UTF-8?

Thank you very much for the answer in advance:

MARTA

-- Marta Martinez Gonzalez

Biocomputing Unit (Lab B13) National Center for Biotechnology-CSIC Darwin, 3. Campus de la Universidad Autonoma de Madrid 28049 Madrid. Spain Tel:+34 915854510 Fax:+34 913720112 E-mail: mmmtnez@cnb.csic.es

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