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1763: Poly-Proline Helix Design: Round 1
Status: Closed

Summary

Name: 1763: Poly-Proline Helix Design: Round 1
Status: Closed
Created: 11/21/2019
Points: 100
Expired: 11/28/2019 - 23:00
Difficulty: Intermediate
Description: This puzzle introduces a new secondary structure, the poly-proline helix! The starting structure is a small 38 residue protein with a frozen helix and designable residues on either end. Players should fold the starting structure to create a compact globular protein that incorporates this new type of secondary structure. Note that the backbone of the poly-proline helix has bondable oxygen atoms. If any of these oxygens are buried in the protein core, they will need to make hydrogen bonds! See the blog for more information!
Categories: Design, Overall

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Comments

Joined: 03/30/2013
Groups: Go Science
poly pro helices

If we are designing collagen-like structures, don't we need hydroxyproline as an amino acid?

see wikipedia
https://en.wikipedia.org/wiki/Hydroxyproline
and
Gorres, Kelly L.; Raines, Ronald T. (April 2010). "Prolyl 4-hydroxylase". Critical Reviews in Biochemistry and Molecular Biology. 45 (2): 106–124.

neilpg628's picture
User offline. Last seen 2 hours 1 min ago. Offline
Joined: 08/01/2019
Groups: None
Hydroxyproline

Collagen happens to contain hydroxyproline (a non-canonical amino acid), but poly-proline helices (and proteins that incorporate them) do not need to contain this residue. Currently Foldit works best with the 20 encoded amino acids, so we try to design puzzles with only these residues.

frood66's picture
User offline. Last seen 11 hours 17 min ago. Offline
Joined: 09/20/2011
Groups: Marvin's bunch
no blueprint? - let alone the

no blueprint? - let alone the above.

bkoep's picture
User offline. Last seen 2 hours 8 min ago. Offline
Joined: 11/15/2012
Groups: None
Whoops!

Sorry, that was an oversight! We will be sure to include the Blueprint in future puzzles!

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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, RosettaCommons