Reply To: How to fold membrane protein in PyRosetta?

[Anonymous]

Start with asking yourself how to fold a regular protein in PyRosetta/Rosetta. There are very well written tutorials and sample scripts to help get you started. To fold a membrane protein specifically, you could taylor PyRosetta to your needs. Aka, changing the scoring function accordingly, folding certain parts first, etc. Are you trying to fold the entire protein, or just the extra/intra cellular protein? Is there any homology to any known structures for any of the domains you are interested in? With PyRosetta, there is no one way to do anything. Even simple folding. I would honestly start with Rosetta itself, and then once you know more of what you are looking to manipulate, move onto PyRosetta. Hope that helps.

-Jared