Protein Modeling C

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Re: Protein Modeling C

Post by CookiePie1 » December 3rd, 2018, 7:15 pm

KSSOISLIT wrote:Are y'all bringing in 3 sheets of notes at your invitationals? We've been using only 1 sheet, but someone pointed out to me recently that the rules, similar to the Forensics rules this year, say "each participant" before mentioning the "one sheet" comment. Would this mean a team of 3 can bring 3 sheets? Thanks.
Yes, that's correct. If you have a team of two, bring two sheets, etc.
BanjoRodriguez wrote:Hey all,

How much are the functional add ons weighted in the judging process? Also how many are recommended? The rules are quite ambiguous about it. :?:

I’ve been relatively successful with the event at the two invitationals I’ve been to, but I’m really trying to take my pre-build to the “next level” to remain competitive with some of the great teams in my region. Any suggestions? :D
As you go from regionals/invies to states and nats, there will be more and more weight placed on the added features. In general, you should add as many as you can that are functionally relavant to the protein. To further improve your model, you can spray paint your model to indicate the different secondary structures, and keep adding more add ons. You should also focus on the test to get as high a score as possible.
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Re: Protein Modeling C

Post by eagerlearner102 » December 4th, 2018, 4:55 pm

For those that had past experience, do any of you have suggestions on how to fold it? I watched the videos but I struggle with the 3D structure folding. It is so hard! :(
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Re: Protein Modeling C

Post by JoeyC » December 5th, 2018, 10:44 am

Practice. Keep on doing it til you can't function. Rinse repeat, and folding comes natural
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Re: Protein Modeling C

Post by tm-scioli » December 5th, 2018, 5:46 pm

Hello,
I am a bit confused as to add-ons. I have the main chain, end caps, and colored secondary structures, but I'm not sure what to add from here beyond putting in a hundred hydrogen bonds.
Thanks in advance!

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Re: Protein Modeling C

Post by CookiePie1 » December 5th, 2018, 6:05 pm

tm-scioli wrote:Hello,
I am a bit confused as to add-ons. I have the main chain, end caps, and colored secondary structures, but I'm not sure what to add from here beyond putting in a hundred hydrogen bonds.
Thanks in advance!
You should only add extra features that are functionally relevant to the protein. There's no use to adding so many hydrogen bonds because they aren't specific to the function of this particular protein.
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Re: Protein Modeling C

Post by tm-scioli » December 6th, 2018, 9:18 am

OK thank you!
But what other add ons would you use beyond that?

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Re: Protein Modeling C

Post by DaedalusMinor » December 13th, 2018, 1:42 pm

Do you guys think that putting chunks of CRISPR Cas9 sequences on the model would be a good idea? Like attaching small lengths of toobers to anti-Crispr, wherever it is bonded to Cas9.

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Re: Protein Modeling C

Post by luanne » December 13th, 2018, 2:36 pm

Guys: is your prebuild toober that you ordered correct? ours is 164 cm.
Also: how do you identify at which residue the helix/sheet starts/ends?
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Re: Protein Modeling C

Post by platypusomelette » December 13th, 2018, 3:45 pm

Anyone have any ideas for how to display the cas9? Should I just take a knife to a chunk of styrofoam or something lol
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Re: Protein Modeling C

Post by CookiePie1 » December 13th, 2018, 4:25 pm

DaedalusMinor wrote:Do you guys think that putting chunks of CRISPR Cas9 sequences on the model would be a good idea? Like attaching small lengths of toobers to anti-Crispr, wherever it is bonded to Cas9.

Much love from,
Michael Cera and Baljeet Tjinder <3 <3 <3 <3
You should only do so if those parts are important to how the Anti-CRISPR protein disables the function of the Cas9 protein.
luanne wrote:Guys: is your prebuild toober that you ordered correct? ours is 164 cm.
Also: how do you identify at which residue the helix/sheet starts/ends?
If you ordered your kit from 3D Molecular Designs, it should be correct. In the Online Prebuild Environment, Once you have narrowed it down to the part you'd like to model, if you wave your mouse over the structure, it'll tell you which residue you are waving over.
platypusomelette wrote:Anyone have any ideas for how to display the cas9? Should I just take a knife to a chunk of styrofoam or something lol
You aren't required to display the Cas9 protein itself, but you can if you want. Since it's a creative addition, you are at liberty to display it in any form you would like. If you think sticking a knife in some styrofoam is a good way to do it, then go ahead.
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