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1644: Symmetric Dimer Design

Closed since about 7 years ago

Intermediate Overall Design Symmetry

Summary

Created
March 04, 2019
Expires
Max points
100
Description

This symmetric design puzzle has C2 symmetry, with two symmetric chains. There is no H-bond Network Objective in this puzzle, so the interface can be completely nonpolar (orange sidechains). No more than 50% of residues may form helices, and all loops must match one of the Ideal Loop Building Blocks found in the Blueprint tool. See the puzzle comments for Objective details. The Baker Lab will run folding predictions on your solutions for this puzzle, and those that perform well will be synthesized in the lab. Remember, you can use the Upload for Scientists button for up to 5 designs that you want us to look at, even if they are not the best-scoring solutions!

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Comments

bkoep Staff Lv 1

Core Existence: Monomer (max +2000)
Ensures that at least 20 residues are buried in the core of the monomer unit.

Core Existence: Complex (max +2400)
Ensures that at least 48 residues are buried in the core of the entire complex (including the interface between monomer units).

SS Design (max +500)
Penalizes all CYS residues. Penalizes GLY, ALA residues in sheets. Penalizes GLY, ALA, SER, THR in helices.

Ideal Loops (max +500)
Penalizes any loop region that does not match one of the Building Blocks in the Blueprint tool. Use "Auto Structures" to see which regions of your protein count as loops.

Secondary Structure (max +500)
No more than 50% of residues may form helices. Extra helices are penalized at 10 points per residue.

spvincent Lv 1

It would be most helpful to be able to add and delete residues to these symmetry puzzles: is there still some bug that precludes this?

jeff101 Lv 1

I would appreciate it if you would list the number of residues (segments) in each monomer on the web pages for puzzles like this. For example, Puzzle 1644 has 70 residues per monomer while Puzzle 1638 had only 65 residues per monomer.

bkoep Staff Lv 1

I agree! Unfortunately, the underlying Rosetta code for residue insertions/deletions is slightly more complicated for symmetric puzzles, so right now this isn't supported in Foldit.

However, I think there are some ways around the difficulty, so hopefully we can fix this soon!

bkoep Staff Lv 1

Other players have mentioned this as well. We'll try to be better about posting residue counts in future design puzzles!