Hello Elaine,

It's nice to hear from you. I guess I input the sequence in a correct way as I tried to input the sequence the same way as in this video https://www.youtube.com/watch?v=6lXeCPuTePs 
Below is a screenshot of interface. I would like to do a protein-protein interaction predication.

Best,

Junyi
From: Elaine Meng <meng@cgl.ucsf.edu>
Sent: Thursday, January 19, 2023 11:34 AM
To: Liang, Junyi <LIANGJ3@ccf.org>
Cc: chimerax-users@cgl.ucsf.edu <chimerax-users@cgl.ucsf.edu>
Subject: [EXT] Re: [chimerax-users] missing or invalid sequences
 
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Without the details of what you did, I can only guess that somehow you did not enter the sequences correctly. They should be plain text, with only a comma between sequences of different proteins.

see AlphaFold predict help:
<https://rbvi.ucsf.edu/chimerax/docs/user/tools/alphafold.html#predict>

To say anything more informative, we would need to see exactly what you pasted into the sequence area, and what options you chose in the input dialog.

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Jan 19, 2023, at 7:27 AM, Liang, Junyi via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
>
> I would like to predicate interaction between two proteins, and tried chimerax version 1.5 after noticing a youtube video https://www.youtube.com/watch?v=6lXeCPuTePs.
>
> Running AlphaFold to Predict Protein Complexes from ChimeraX
> How to predict the structure of a photoreaction center complex of 3 proteins from ChimeraX using AlphaFold-Multimer. Requires a ChimeraX daily build newer than December 2, 2021 or version 1.4. It is not in ChimeraX version 1.3. Web page describing steps https://www.rbvi.ucsf.edu/chimerax/data/alphafold-dec2021/af_multimer.html
> www.youtube.com
> I input the two protein sequences in same way as shown in the video and hit predict. But your software says "missing or invalid sequences". How come?
>

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