puzzle picture
1647: Symmetric Dimer Design: 100 Residues
Status: Closed

Summary

Name: 1647: Symmetric Dimer Design: 100 Residues
Status: Closed
Created: 03/11/2019
Points: 100
Expired: 03/18/2019 - 23:00
Difficulty: Intermediate
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!
Categories: Design, Overall, Symmetry

Top Groups

RankGroupScorePoints
1Anthropic Dreams26,931100
2Gargleblasters26,93076
3Beta Folders26,80956
4Contenders26,74241
5Go Science26,59929

Top Evolvers

Top Soloists



Need this puzzle? Log in to download.  

Comments

bkoep's picture
User offline. Last seen 1 hour 22 min ago. Offline
Joined: 11/15/2012
Groups: None
Objectives

Core Existence: Monomer (max +3000)
Ensures that at least 30 residues are buried in the core of the monomer unit.

Core Existence: Complex (max +3700)
Ensures that at least 74 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.

Joined: 06/24/2008
Groups: Void Crushers
Ideal Loops

The symmetry chain is lighting up as bad.

stomjoh's picture
User offline. Last seen 3 hours 31 min ago. Offline
Joined: 11/18/2012
Groups: None
Too MANY Residues in the complex core?

If you want exactly 74 residues in the complex core, just say so. Anything under 74 is a point reduction - got it.
But you're also penalizing points for having more than 74 residues in the complex core???

bkoep's picture
User offline. Last seen 1 hour 22 min ago. Offline
Joined: 11/15/2012
Groups: None
Share with scientists?

Whoa, that's not right. None of these objectives should penalize you for having too many core residues. Can you share your solution with scientists?

Also, are there any details about the Objective penalty (if you hover your cursor over the Objective description)?

actiasluna's picture
User offline. Last seen 3 hours 13 min ago. Offline
Joined: 03/05/2015
Groups: Gargleblasters
I got that too.

If I can replicate I'll share. I had fixed a bad loop and when it wiggled out too many residues in the core penalty came up. I noticed that penalty last night too when I was folding the pattern.
Shared solution. Hover says "Too many residues in the core. Move core (orange) residues out to the surface (4 to go)"

It appears to penalize 20 points per "extra" residue.

stomjoh's picture
User offline. Last seen 3 hours 31 min ago. Offline
Joined: 11/18/2012
Groups: None
I will try to replicate

But I trashed that design and started over.

Get Started: Download
  Windows    OSX    Linux  
Windows
(7/8/10)
OSX
(10.7 or later)
Linux
(64-bit)

Are you new to Foldit? Click here.

Are you a student? Click here.

Are you an educator? Click here.
Search
Only search fold.it
Recommend Foldit
User login
Soloists
Evolvers
Groups
Topics
Top New Users
Sitemap

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