Protein Modeling C

nicholasmaurer
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Re: Protein Modeling C

Postby nicholasmaurer » September 20th, 2018, 10:18 am

But it does limit itself to protein folding(specifically the process that drive it) where past test contained more general protein questions(such as "what amino acid contains sulfur?")
True. I do expect fewer general knowledge questions than in past iterations of this event. However, it is hard to discuss the chemistry of protein folding with knowing that methionine contains sulfur and is responsible for disulfide bonds. There are lots of indirect areas of proteins that are required to address protein folding. But this should still be much narrower than the previous rules allowed, where tests often became collections of random trivia.
Correct me if I'm wrong, but I don't think that methionine can have disulfide bonds - are you referring to cysteine?
Yes, you're correct. Methionine contains sulfur, but cysteine forms disulfide linkages.
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Nano1llus10n
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Re: Protein Modeling C

Postby Nano1llus10n » September 23rd, 2018, 7:39 pm

In the rules, under the test portion, it says that the test will contain "the principles of chemistry that drive protein folding". Does this include thermodynamics too? I was thinking maybe Gibbs free energy.
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PeptoBismol
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Re: Protein Modeling C

Postby PeptoBismol » September 28th, 2018, 10:20 pm

To clarify we're building anti crispr and researching both

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luanne
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Re: Protein Modeling C

Postby luanne » September 29th, 2018, 11:29 am

^can someone confirm
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Re: Protein Modeling C

Postby CookiePie1 » September 29th, 2018, 9:38 pm

To clarify we're building anti crispr and researching both
Yes. That's correct. If you're not sure just check the rules clarification page on soinc.
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Re: Protein Modeling C

Postby izzanom » September 30th, 2018, 9:45 am

I'm new to this event and honestly I'm a bit lost as to where to start studying for the exam section. I've looked at the resources on soinc but all of that stuff seems to be mainly about building the models and some of the links haven't updated this year. Can anyone show me stuff for protein folding or anything else that is important to know?

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Re: Protein Modeling C

Postby freed2003 » September 30th, 2018, 3:30 pm

I'm new to this event and honestly I'm a bit lost as to where to start studying for the exam section. I've looked at the resources on soinc but all of that stuff seems to be mainly about building the models and some of the links haven't updated this year. Can anyone show me stuff for protein folding or anything else that is important to know?
According to the official rules the test topics will include the forces that drive protein folding as well as information about the onsite protein and this years topic(crispr cas9 and anti crispr)
I'd study all 4 levels of protein structure and teh structure functions and "history" of crispr
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mabela2019
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Re: Protein Modeling C

Postby mabela2019 » October 11th, 2018, 6:33 pm

So, is there any way of knowing about the on-site build protein beforehand, or will we just be asked about the general concepts behind all proteins and how they apply to that specific protein?

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Re: Protein Modeling C

Postby pikachu4919 » October 11th, 2018, 6:54 pm

So, is there any way of knowing about the on-site build protein beforehand, or will we just be asked about the general concepts behind all proteins and how they apply to that specific protein?
Generally, the proteins used for onsite are listed online in resources on MSOE's website, but they won't tell you the exact sequence range they want you to model on the website - that's what you find out when you get there. I don't think I've competed in seasons where I've attended enough of a sample size of invitationals within that season (unfortunate conflicts) to know if the invitational onsite that MSOE distributes is the same for them all or no. Honestly, it's kinda unpredictable, which is the beauty of the onsite model since you have to be really familiar with Jmol as well as attentive to details in terms of trying to create a great onsite.

EDIT: I checked the website and currently as of this post it looks like only a single CRISPR-Cas9 protein is listed for the different levels of onsite (the same pdb file for them all too). Generally, there should be four different proteins, I'm not sure if it's something they were going to do yet haven't changed on the website (which may be unlikely since it looks like the whole site seems to have been built up, possibly minus some things that I haven't poked around for yet) or if they just want to do a different sequence for each level of onsite... *shrugs*
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Re: Protein Modeling C

Postby huppada » October 11th, 2018, 7:23 pm

So according to the rules clarifications, the pre-build is only the Anti-Crispr protein right? Are there any other structures we should include?
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