Hi Vincent, The AlphaFold calculation is separate from ChimeraX, and we are not the developers of that program. For details on how it works, I can only suggest reading the AlphaFold, AlphaFold-Multimer, and perhaps also the ColabFold papers cited in our help page. There are links to all three papers therein: AlphaFold and AlphaFold-Multimer paper links near the top: <https://rbvi.ucsf.edu/chimerax/docs/user/tools/alphafold.html#top> ...and ColabFold paper link in the prediction section: <https://rbvi.ucsf.edu/chimerax/docs/user/tools/alphafold.html#predict> If these papers are not providing adequate detail, you could consider asking the AlphaFold developers (authors of the papers) directly. Best, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Oct 1, 2023, at 10:39 AM, Vincent Candela via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hello,
I am an undergraduate researcher at McGill University using the Alphafold feature of ChimeraX to study the role of tau on microtubule dimers, and I was wondering if you could point me to detailed documentation on the energy-minimization feature of Alphafold. I’ve been looking at the ChimeraX documentation and couldn’t find an in-depth documentation on what it does.
Thank you so much,
Vincent Candela