1027b: 80 Residue Symmetric Tetramer Design

Closed since about 11 years ago

Summary

• Created: December 19, 2014
• Expires: January 05, 2015 at 23:00 UTC
• 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!




This puzzle will be online for two and half weeks, so take the opportunity to try several different designs!

Top groups

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Top soloists

• 1. MurloW 100 pts. 18,844
• 2. BitSpawn 99 pts. 18,842
• 3. retiredmichael 97 pts. 18,746
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• 5. nicobul 94 pts. 18,455
• 6. phi16 93 pts. 18,224
• 7. Bruno Kestemont 91 pts. 18,189
• 8. justjustin 90 pts. 18,146
• 9. pvc78 88 pts. 18,143
• 10. gmn 87 pts. 18,108

Comments

[bkoep]

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

Core Existence: Monomer: Ensures that at least 30% of the residues are buried in the core of the monomer unit.

Core Existence: Complex: Ensures that at least 38% of the 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 GLY, ALA, and PRO residues in helices and sheets.

[Skippysk8s]

no way this will run with so many filters….

[Bruno Kestemont]

This puzzle being very slow, it's great that we got a lot of time to finish it. It even ask us less manual work: a recipe lasting one night now last 1 day or more. This gives us opportunity not to care about our results during a full day.

Thanks that you also provided a short quick puzzle so that we can still satisfy our day to day addiction :)

[CheezWhiz]

This puzzle makes my computer sad. :(

[Norrjane]

Hi,
I think I may be too new for this. Thanks for the people who have tried to help and maybe I should just let it go for now. But if anyone could give hints on how to get started on something like this I'm sure a lot of us may appreciate it. What is the VERY FIRST thing you do……then what…..*
Thanks,
Jane

*And how did you learn it? I've been thru the tuts 3 times and and have done a few puzzles but I need to learn much more extensive skills.

[Skippysk8s]

There is no one answer to this. I suggest get a shape of helix bundles and play with them. Try 3 or 4 or 5. put a loop of 3-5 segments between each helix and idealize the helix. freeze them and rubber band them to a symmetric shape. turn the clash index to 0 at first and position them close to each other. the core is the color one you can work on. the other three gray ones will mime your color one, and you want your color one close to those shadow ones as well. Use lots of rubber bands.
then mutate. there are some programs, like mutate no wiggle, that allow you to specify that you want to exclude gly, ala and pro. run that next. then reset clash index to one and run blue fuse. just play with it from there using something like tvdl drw 2.6.2 or moving the colored part by hand
These are very hard, and the puzzle moves very slowly because of all the filters. So I would work in cartoon mode for view, then turn view to hydro, line and no stubs with nothing else on except the pulse gui button. Walk away and do something and come back later to check
Hope this helps you at least get a start.

[Norrjane]

Thank you so much. I'm sure you have helped many of us who want to try to make a difference.
Jane

[Skippysk8s]

this program keeps crashing each time I restart and try to get the track name lined up….Any way this can be simplified at the basic level (e.g. not allowing banned AAs) so we can play the game instead of rebooting all the time? I am having to use puzzle names to designate track. very annoying on top of the extremely slow speed. should have never opened….
Please fix these. they are interesting and would be fun if us ordinary computer owners could work them
Happy Holidays

[spmm]

The main reason that people who have been playing for a while don't give new players precise instructions especially in design puzzles is because that is not really what the game is about, it is far more important to find your own way, make your own discoveries and keep trying.

It takes a while to get the hang of it, but suddenly 'getting it' or a small part of 'it' can be very rewarding. Especially when you know its your own design.

There is a great new video about design puzzles
http://fold.it/portal/node/1998900 Also a new page on the wiki about design structures. And lots of screen shots of previous winning solutions on the wiki as well.

[spmm]

Put a cross in the 'disable slow filters box' it will still be very very very slow but you can get some shapes started, then turn the filters back on and do a small move, shake or wiggle, check your score. Turn filters off rinse and repeat.
Working out exactly what you want to do first with filters off is probably the way to go.