Assembling AlphaFold protein models with ChimeraX

We combine two AlphaFold protein structure predictions into an assembly using ChimeraX and find that its conformation does not match the experimental structure because the proteins are flexible. Requires September 2021 ChimeraX of newer.

[@arleyr6364]

Hay unas utilidades que no están presentes un the free versión of chimera X

[@ucsfchimerax8387]

AlphaFold is only in ChimeraX September 2021 or newer, not in ChimeraX 1.2.5. Get a daily build or 1.3 when it is out (late October).

[@arleyr6364]

@@ucsfchimerax8387 ok thanks...

[@jethrosims8339]

Hi, what if there are 2 alphafold structures for the gene that are very similar, can you choose which to fetch for comparison against your experimental?

[@ucsfchimerax8387]

To get two AlphaFold database structures that are similar to your sequence of interest, use the Search button on the ChimeraX AlphaFold panel or use the "alphafold search" command. In either case it will do a BLAST sequence search against all AlphaFold database structures and present a table of all the found structures. If you double click on an entry in that table it will download it. I realize the double click to download is not obvious.