Changes between Version 7 and Version 8 of SOPs/AlphaFoldMultimer


Ignore:
Timestamp:
05/29/24 09:48:45 (7 months ago)
Author:
gbell
Comment:

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  • SOPs/AlphaFoldMultimer

    v7 v8  
    33=== Background ===
    44As soon as the effectiveness of AlphaFold2 for protein structure prediction became evident, workers began to adapt it to predicting protein structure ''complexes''.  This effort led to [https://www.biorxiv.org/content/10.1101/2021.10.04.463034v2 AlphaFold-Multimer]. While the best place to start a search for a predicted structure for a single protein sequence is likely to be an online database, you will likely have to compute the predicted structures for multimeric protein complexes.
     5
     6=== Running AlphaFold3 ===
     7
     8AlphaFold3 can predict structures of multiple types of molecules, including protein, DNA, RNA, ligands, and ions.  The code for AlphaFold3 is not available, but it can be run on the Google AlphaFold server: [https://golgi.sandbox.google.com/ https://golgi.sandbox.google.com/]  As of May 2024, one can run as many as 20 jobs per day.  You can download the results (for the 5 predictions from each job), including structure (cif) files that can be opened in PyMOL or other structural viewers.
    59
    610=== Running AlphaFold-Multimer using ChimeraX ===