Protein Modeling C

[eagerlearner102]

The research paper talks a lot about binary and ternary complex of sgRNA bound Spycas9. What is the major difference between the 2?

[ReallyConfused]

Hi guys, I am frantically trying to get my pre-build model built and I am utterly confused. Do we need to literally put a mark for every amino acid? Also, when I viewed the protein, it seemed pretty small and only had 3-5 alpha helices. Is this right?
Thanks!

[JoeyC]

Yes. You do not need to mark every amino acid. It is recommended, but no one should take off points for it. (though I wouldn't consider 3-5 alpha helices small )

[CookiePie1]

Yes. You do not need to mark every amino acid. It is recommended, but no one should take off points for it. (though I wouldn't consider 3-5 alpha helices small )

While you don't need to, it is still a good practice, and for 85 residues, should only take about 3-5 minutes. Use a sharpie. It is very difficult to accurately build a model without knowing where each specific amino acid is. It will also help when you start to add sidechains and creative additions.

[ReallyConfused]

Thank you for your help! When you say "mark" the amino acids, does that mean like putting a push pin for every one? i thought about doing that but worry that it might get too crowded

[ReallyConfused]

Oh wait I just looked at previous protein models and I think I understand now. Thanks!

[TheMysteriousMapMan]

Hi all!

My coach just assigned me to be the third member of Protein Modeling. The other two and I have decided that I will focus on the test portion, as that is more of my forté. As I am new to this event, and biology events in general, where should I start studying? What should I know about CRISPR? Like I said, I know only what I learned in Bio classes as I don't normally do biology-focused events, so assume I know nothing.

Thanks for your help, in advance!

[eagerlearner102]

Go on http://cbm.msoe.edu/scienceOlympiad/ to get a good foundation on CRISPR. Once you are able to lecture about CRISPR, read the 2 research papers in DETAIL. I mean in detail as in know the exact residues, knowing which domains, and perhaps the methods they used in the research paper (SEC, enzymatic assays, etc.) Focus on the Yang and Patel research paper more on the other one because I took around 5 practice tests and there was more weight on the Yang and Patel one.
For the harder ones like MIT invitational that I practiced on, I noticed that these concepts were literally found on Klein Organic Chemistry textbook chapter 25 for amino acids. I also read MIT OCW lecture notes 5.07 and 7.012 about it just to get a better understanding.

[eagerlearner102]

There is an awesome video here to memorize the 20 amino acids properties and categories + abbreviations:
https://www.youtube.com/watch?v=m130s94pMjE

Once you memorize that, you have a basic understanding.
You should also have a good understanding of how DNA works.
For an interactive CRISPR, that can be found here:
https://www.hhmi.org/biointeractive/cri ... plications
Hope that helps! Good luck!

[jocoboxo]

Hey everyone,

when I read the articles, how do I know what's important and exactly where on the anti-CRISPR protein it should be?