Alphafold for protein complex : bioinformatics

I have Alphafold running on our computing cluster, and it’s working great for single proteins. I notice their is a Google Colab notebook with ‘advanced’ settings which allows you to input multiple protein chains separated by “:”. I tried this for a heterodimer, and it works well; however when I try something more complex, Google Colab throws and out-of-memory error (even though I have Colab Pro).

Does anyone know how to input multiple chains in the stand-alone software I’m running locally on our cluster? I tried separating by “:”, but it returns “illegal character :”. There doesn’t seem to be any literature on this, and the Google Colab code is too complex for me to reverse engineer.

Read more here: Source link