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549: Beginner Immunotherapy Design Puzzle 2

Closed since almost 14 years ago

Beginner Overall Design

Summary

Created
April 26, 2012
Expires
Max points
100
Description

We are giving you a 8 residue long helix that you are able to mutate & dock onto the native binding region which is indicated by the side chains that are allowed to shake. Try to look for favorable hydrophobic interactions and strong hydrogen bonds, while maintaining the helix! If you are new to Foldit, make sure you have completed Intro Puzzle 5-2, and 7-1 through 7-4 before trying this puzzle. More info in the Puzzle Comments.

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Comments

beta_helix Staff Lv 1

Since the first Immunotherapy Design Puzzle (539) gave really interesting results, we start off with a new one in this series. The goal is again to find a solution which binds the CTLA-4 protein (more background here: http://fold.it/portal/node/992285), however you are now targeting the native binding site of the CTLA-4 protein. Nature already came up with a beta-sheet which is capable of binding this region, we are now searching for a helix to interact with the site.

and please check out the blogpost about this: http://fold.it/portal/node/992498

mbinfield Lv 1

In a future iteration, can we have slightly weaker constraints on the binding site? I'd like to work in the area around 91, which is just far enough away that the constraint makes it difficult, but I think you could get good interactions there.

EvdH Lv 1

It is indeed an interesting area with the hydrophobic over there, but since Ile91 is relatively far away from the natural binding site, it is constrained in this puzzle.

mbinfield Lv 1

Ah, thanks. I was thinking maybe it would still be close enough to interfere with the natural binding site, maybe depending on the backbone behind the helix.