Anti-inflammatory designs queued for testing!

We've selected 100 of the most promising designs from Puzzle 1824 and Puzzle 1828, which will be synthesized and tested for binding to the IL-6 receptor (IL6R).

In our last blog post, we announced a similar experiment for binders to the coronavirus spike protein. (We had some issues getting the necessary materials for that experiment, but we've come up with a workaround and that experiment is back on track!) These latest designs will be tested using the same kind of experiment, using yeast display and flow cytometry techniques, but swapping in the IL6R target instead of spike protein. See our previous YouTube video for more.

IL6R is a protein found on human immune cells, and plays a role in the "cytokine storm" that can cause dangerous inflammation in severe cases of COVID-19. A protein that binds to IL6R might be useful as a drug to temper this inflammation. We'll be testing these 100 Foldit player-designed proteins to see if they bind to the IL6R in a controlled lab setting. It will be several weeks before the experiment results come in, but we'll continue running more anti-inflammatory puzzles to try and develop even better designs.

Below are the 100 selected designs (click for full-size image). Remember to fill out our username sharing form if you want to see your username in Foldit updates!

2009432_c0003 LociOiling
2009432_c0004 ZeroLeak7, puxatudo, Phyx, PLAYER_21, w1seguy, Bruno Kestemont
2009432_c0006 PLAYER_11
2009432_c0007 Skippysk8s
2009432_c0009 PLAYER_5, TheGUmmer
2009432_c0010 Galaxie
2009432_c0011 Phyx
2009432_c0012 CharlieFortsConscience, Bletchley Park, georg137, spvincent
2009432_c0014 g_b
2009432_c0016 Bruno Kestemont
2009432_c0017 w1seguy
2009432_c0020 georg137
2009432_c0022 PLAYER_7
2009432_c0025 Tehnologik1
2009432_c0026 PLAYER_3
2009432_c0029 ucad
2009432_c0030 Steven Pletsch, AntiVaccine
2009432_c0033 PLAYER_20
2009432_c0034 Crossed Sticks
2009432_c0042 PLAYER_10
2009432_c0044 Phyx
2009432_c0046 actiasluna
2009432_c0064 Scopper
2009432_c0069 PLAYER_1
2009432_c0074 krulon
2009432_c0085 gm82
2009432_c0090 PLAYER_16
2009432_c0092 spvincent
2009432_c0096 silent gene
2009432_c0101 PLAYER_4, spdenne
2009432_c0115 johnmitch
2009432_c0127 Migi
2009432_c0132 PLAYER_15
2009432_c0228 Migi
2009432_c0279 PLAYER_25
2009432_c0317 PLAYER_7
2009432_c0320 CharlieFortsConscience
2009432_c0341 NinjaGreg
2009432_c0353 jeff101
2009432_c0417 PLAYER_6
2009432_c0437 actiasluna
2009432_c0532 Joanna_H
2009432_c0667 ZeroLeak7
2009432_c0753 gm82
2009432_c0775 PLAYER_9
2009432_y1336 PLAYER_22
2009432_y1474 bertro
2009432_y3389 johnmitch
2009432_y6445 silent gene
2009432_y9574 Scopper

2009565_c0001 ZeroLeak7, Bruno Kestemont, mirp, RockOn
2009565_c0002 Mike Lewis, Formula350, Skippysk8s, actiasluna, Joanna_H, Jpilkington
2009565_c0004 fiendish_ghoul
2009565_c0005 mirp
2009565_c0011 Vinara
2009565_c0013 spmm
2009565_c0014 Ldupcz
2009565_c0015 ZeroLeak7
2009565_c0018 PLAYER_24
2009565_c0019 MurloW
2009565_c0024 PLAYER_12
2009565_c0025 Scopper, NinjaGreg, RockOn
2009565_c0028 dcrwheeler
2009565_c0030 Skippysk8s
2009565_c0031 PLAYER_24
2009565_c0033 fiendish_ghoul
2009565_c0037 stomjoh
2009565_c0043 PLAYER_13
2009565_c0044 spdenne
2009565_c0047 ichwilldiesennamen
2009565_c0048 PLAYER_4
2009565_c0056 krulon
2009565_c0058 jamiexq
2009565_c0060 ichwilldiesennamen
2009565_c0063 Mike Lewis
2009565_c0067 Bletchley Park
2009565_c0074 actiasluna, Formula350
2009565_c0075 Mike Lewis, Joanna_H, Jpilkington, ManVsYard
2009565_c0080 johnmitch
2009565_c0085 krulon
2009565_c0086 Galaxie
2009565_c0095 gm82
2009565_c0096 ichwilldiesennamen
2009565_c0097 Joanna_H
2009565_c0099 abiogenesis
2009565_c0103 jamiexq
2009565_c0112 PLAYER_3
2009565_c0115 actiasluna, Formula350
2009565_c0125 PLAYER_26
2009565_c0145 CAN1958
2009565_c0146 PLAYER_14
2009565_c0150 PLAYER_2
2009565_c0151 abiogenesis
2009565_c0158 PLAYER_12
2009565_c0177 GuR0
2009565_c0459 jawz101
2009565_y1631 silent gene
2009565_y1796 krulon
2009565_y1798 krulon
2009565_y2945 Amphimixus

( Posted by  bkoep 159 2983  |  Tue, 05/12/2020 - 06:42  |  15 comments )
7
Joined: 09/24/2012
Groups: Go Science
Impressing

how you can select so many "promizing" designs and test them in lab !

Joined: 07/15/2020
Groups: None
hello

i want to read more about this please

Joined: 06/06/2013
Groups: Gargleblasters
feeling like that year or two on monomers was worth it!

after we spent so long on monomers, dimers, trimers and more it is really cool to see them working in an applied fashion. And neat to see some non-traditional folds working too.

We'd all love feedback. I'm wondering how many sidechain bonds are enough versus shape conformancy. I'm personally better at the latter, but would like to know where I could improve

Thanks for all the hard work at the lab...

Scopper's picture
User offline. Last seen 1 week 2 days ago. Offline
Joined: 10/26/2015
Groups: Go Science
Google Forms

Google Forms link isnt working?

bkoep's picture
User offline. Last seen 26 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
Details?

Hmm, it's working okay for me. Can say more about what isn't working? Are you able to load the Google form, or are you unable to submit your responses? What browser are you using?

Scopper's picture
User offline. Last seen 1 week 2 days ago. Offline
Joined: 10/26/2015
Groups: Go Science
.

I think it was my internet connection. The link was not loading, but a few hours later it worked. Thanks for reply!

Joanna_H's picture
User offline. Last seen 4 hours 9 min ago. Offline
Joined: 12/29/2010
Groups: Gargleblasters
Wondering if I'm player 8?

Wondering if I'm player 8? Didn't know I had a form to fill out.. lol

bkoep's picture
User offline. Last seen 26 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
Yes!

We're sorry about the extra step, but we like to be careful about identifying the work of individual Foldit players. Lots of players have clearly expressed a preference for privacy.

Thank you for filling out the form! I've updated the post.

Joined: 03/19/2020
Groups: None
Testing good , but not to test on cov19 protein spike?

Well finally fold.it team started to work on testing some protein designs, still why noone from USA clinics with covid19 patients can provide samples with actual covid19 protein spikes?
I repeat in Germany we have lots and lots of organizations maybe we can arrange something there?

jawz101's picture
User offline. Last seen 47 min 37 sec ago. Offline
Joined: 03/07/2020
Groups: None
I like how mine is the

I like how mine is the goofiest one. Why do we all end up doing 3 or 4 helixes? Maybe encourage anything but those shapes because they don't seem to represent much variety.

jawz101's picture
User offline. Last seen 47 min 37 sec ago. Offline
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errr.. .helices.

errr.. .helices.

LociOiling's picture
User offline. Last seen 36 min 42 sec ago. Offline
Joined: 12/27/2012
Groups: Beta Folders
helixes rule

Helixes or helices get a lot of atoms in a small space as compared to sheets or loops. Triple helixes seem to work better than quadruple helixes for complex numerological reasons that escape me.

As far as orthography goes, I've been leaning toward "helixes" since we're using English and not ancient Greek. But I just realized I'm comfortable saying the plural of "matrix" is "matrices" and not "matrixes. So much for consistency.

jawz101's picture
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Joined: 03/07/2020
Groups: None
Doesn't that bug you a bit?

Doesn't that bug you a bit? It feels like it leaves the creativity out if everything ends up being 3/4 helices. At that point it would just be a matter of a recipe to create a 3 helix shape, move them into position, and try every rotation until you get the highest score.

jawz101's picture
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Joined: 03/07/2020
Groups: None
... or buries the most

... or buries the most whatevers.

I've been obsessed with playing with this app for the past few months. It feels like I have a few shapes I play around with but I don't know how they play out.

It would be nice to be able to submit a few shapes for each round rather than "this is my highest scoring shape." Because I may try to see how a few different designs look and shake out.

jeff101's picture
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Joined: 04/20/2012
Groups: Go Science
You can share 5 solutions with Scientists
You can explicitly put many different solutions
on the Foldit server. I think the limits right
now are 10 for yourself, 10 for your group, and
5 for the scientists. Foldit also automatically
sends your latest solutions to the server 
periodically when you are playing online. This
lets the site keep track of your top solo and
evolver scores. I have been told that at the
end of each puzzle, the scientists look at
your best solo and evolver solutions plus
the 5 solutions you shared with scientists.
I think they also use many of the solutions 
automatically saved to the server in plots
like at https://fold.it/portal/node/2006103
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