1763: Poly-Proline Helix Design: Round 1

Closed since over 6 years ago

Summary

• Created: November 21, 2019
• Expires: November 28, 2019 at 23:00 UTC
• Max points: 100

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!

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• 10. silent gene 70 pts. 8,702

Comments

[Anfinsen_slept_here]

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

see wikipedia

en.wikipedia.org

Hydroxyproline

(2S,4R)-4-Hydroxyproline, or L-hydroxyproline (C5H9O3N), is an amino acid, abbreviated as Hyp or O, e.g., in Protein Data Bank. In 1902, Hermann Emil Fischer isolated hydroxyproline from hydrolyzed gelatin. In 1905, Hermann Leuchs synthesized a racemic mixture of 4-hydroxyproline. Hydroxyproline differs from proline by the presence of a hydroxyl (OH) group attached to the gamma carbon atom. Hydroxyproline is produced by hydroxylation of the amino acid proline by the enzyme prolyl hydroxylase f...

and
Gorres, Kelly L.; Raines, Ronald T. (April 2010). "Prolyl 4-hydroxylase". Critical Reviews in Biochemistry and Molecular Biology. 45 (2): 106–124.

[Deleted user]

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]

no blueprint? - let alone the above.

[bkoep]

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