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1068: 70 Residue Symmetric Dimer Design

Closed since over 7 years ago

Intermediate Overall Design Symmetry

Summary


Created
March 26, 2015
Expires
Max points
100
Description

This puzzle again uses separate "Core Existence" filters for the monomer unit and the symmetric complex. Click the "Show" checkbox beneath the Core Existence filter to see which residues have been identified as Core (orange), Boundary (green), or Surface (blue). There are several other filters in effect; see the puzzle comments for 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

Residue IE Score: Monitors that all PHE, TYR, and TRP residues are scoring well.

Core Existence: Monomer: Ensures that at least 19 residues are buried in the core of the monomer unit.

Core Existence: Complex: Ensures that at least 42 residues are buried in the core of the entire complex (including the interface between monomer units).

Fragment Score: Scans for parts of your design that are unlikely to fold up naturally. Use Rebuild and Remix tools to fix these regions of your design!

Secondary Structure Design: Penalizes all CYS residues. Penalizes GLY, ALA, and PRO residues in helices and sheets.

Bautho Lv 1

I am getting the bonus for the Core Existence Filter regarding the complex, although the monomers are miles away from each other…

bkoep Staff Lv 1

This can happen if your monomer unit has enough residues in the core (21 in this case) to satisfy both filters. Perhaps this Complex Core Existence filter isn't stringent enough!

Timo van der Laan Lv 1

Havent mutated anything, so I would expect a penalty for having lots of isoleucines on the surface.
To my supprise I have the SS design bonus.
Shared nopenalty with scientists.

bkoep Staff Lv 1

We're only interested in solutions where the two monomers form an interface.

Perhaps the filter threshold is too low, but in this puzzle we wanted to allow players some more room to explore new conformations.

bkoep Staff Lv 1

In this puzzle we've omitted the penalty for exposed hydrophobics and buried hydrophilics. I've amended the filter description—thanks for the catch!

spmm Lv 1

Would you please state the type of symmetry being used for each of these puzzles. Thanks