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Recipe: BandFuze Orange Guard v0.2
Created by Susume 60 734
Your rating: None Average: 4.4 (8 votes)


Name: BandFuze Orange Guard v0.2
ID: 103399
Created on: Sun, 04/12/2020 - 10:16
Updated on: Sun, 04/12/2020 - 17:16

Before running script, freeze the sidechains you want to keep orange. An adaptation of MurloW's awesome script BandFuze.

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RockOn's picture
User offline. Last seen 1 day 15 hours ago. Offline
Joined: 06/01/2011
Groups: Go Science
Why do I want to keep orange?

Is this where one would click the 'show' checkbox when needing to see the 'core' issues?

And, again - why keep orange.

Thanks, for any help or clues.

Susume's picture
User offline. Last seen 14 hours 48 min ago. Offline
Joined: 10/02/2011
Orange Guard is for Science

Orange Guard lets you protect orange sidechains that foldit wants to turn blue, by freezing those sidechains before you start the script. It will try to mutate those sidechains, but only to other orange ones.

Orange Guard will *not* score better than regular bandfuze, since it limits the mutations that foldit is allowed to try. The more sidechains you protect by freezing them, the more the score is limited. So why run it? It prevents foldit from producing a protein with a long stretch of only blue sidechains (say, an entire edge sheet, or more than one turn of a helix). The scientists generally don't pick a protein for testing in Rosetta if it has an entire blue sheet or a long stretch of blue helix, because they know the protein will not fold up as designed.

Use Orange Guard if getting your protein tested is more important to you than getting the top score. Better still, run Orange Guard in one track and the regular script in another track (you can use the same script, just don't freeze any sidechains first). Then you can have the best of both worlds.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, Boehringer Ingelheim, RosettaCommons