Protein Modeling C

shivanirao21
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Re: Protein Modeling C

Postby shivanirao21 » February 12th, 2019, 9:22 am

banilmd wrote:
eagerlearner102 wrote:For the on site build, does every regional choose their own special sequence to model the protein or is it the same across the entire nation? I am asking this question because I saw the onsite build instructions from the MIT invitational.
Also, how do you really practice for the on site build considering the fact that it is now 40%?

Me and my partner have just went along separating the protein that’s usually given to us for onsite into roughly 100 residue sections.
We just go along and practice timed building of significant structures.

How did you figure out which amino acid sidechains were significant to the protein during the onsite build?
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Re: Protein Modeling C

Postby CookiePie1 » February 12th, 2019, 9:26 am

shivanirao21 wrote:
banilmd wrote:
eagerlearner102 wrote:For the on site build, does every regional choose their own special sequence to model the protein or is it the same across the entire nation? I am asking this question because I saw the onsite build instructions from the MIT invitational.
Also, how do you really practice for the on site build considering the fact that it is now 40%?

Me and my partner have just went along separating the protein that’s usually given to us for onsite into roughly 100 residue sections.
We just go along and practice timed building of significant structures.

How did you figure out which amino acid sidechains were significant to the protein during the onsite build?


They will usually tell you. It's just up to you to put it in the right spot and orient it correctly.
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eagerlearner102
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Re: Protein Modeling C

Postby eagerlearner102 » February 12th, 2019, 4:51 pm

So as of now, I can use the MIT invitational as practice correct? Also, for the prebuild, did any of you attach DNA or other nucleic acids?
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Re: Protein Modeling C

Postby olhs4n6 » February 12th, 2019, 5:09 pm

eagerlearner102 wrote:So as of now, I can use the MIT invitational as practice correct? Also, for the prebuild, did any of you attach DNA or other nucleic acids?


I didn't add DNA, but was curious as to where one would even add it...

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Re: Protein Modeling C

Postby eagerlearner102 » February 12th, 2019, 5:46 pm

Same. I didn't really see how you could add it. All they mention is their interactions with RuvC, CTD, and PAM domain that have residues.
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Re: Protein Modeling C

Postby unknownuser2 » February 13th, 2019, 6:30 pm

Hi, I'm doing this event at states, but my region doesn't currently run it so I'm in the midst of understanding the event.

As I understand, the on-site build and test are held concurrently so you split the group members between the build and the test. If this is so, why at NY is there both a test section and a self schedule location? I don't see any way that the pre-build needs you there to test it. Any help or ideas would be appreciated.

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Re: Protein Modeling C

Postby platypusomelette » February 13th, 2019, 7:08 pm

unknownuser2 wrote:Hi, I'm doing this event at states, but my region doesn't currently run it so I'm in the midst of understanding the event.

As I understand, the on-site build and test are held concurrently so you split the group members between the build and the test. If this is so, why at NY is there both a test section and a self schedule location? I don't see any way that the pre-build needs you there to test it. Any help or ideas would be appreciated.

Actually that is really weird. The pre-build is being impounded so I'm guessing they have one slot for the written test and another for the onsite build. But at my regionals the written test and onsite build happened at the same time. If they have two separate slots I'm pretty sure 2/3rds of my team is gonna end up sitting around doing nothing during the onsite build lmao
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Re: Protein Modeling C

Postby unknownuser2 » February 14th, 2019, 4:20 am

platypusomelette wrote:
unknownuser2 wrote:Hi, I'm doing this event at states, but my region doesn't currently run it so I'm in the midst of understanding the event.

As I understand, the on-site build and test are held concurrently so you split the group members between the build and the test. If this is so, why at NY is there both a test section and a self schedule location? I don't see any way that the pre-build needs you there to test it. Any help or ideas would be appreciated.

Actually that is really weird. The pre-build is being impounded so I'm guessing they have one slot for the written test and another for the onsite build. But at my regionals the written test and onsite build happened at the same time. If they have two separate slots I'm pretty sure 2/3rds of my team is gonna end up sitting around doing nothing during the onsite build lmao


So if that was the case we’d be able to have all 3 working on the test together? Just a weird situation.

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Re: Protein Modeling C

Postby platypusomelette » February 14th, 2019, 5:28 am

unknownuser2 wrote:So if that was the case we’d be able to have all 3 working on the test together? Just a weird situation.

I guess so. This might actually be a question for the states organizer
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anat: reg 4th
herp: reg 6th
genes: reg 5th
protein: reg 2nd
disease: reg 15th
fossils: reg 4th

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2016: a&p 1st, fossils 3rd
2017: a&p 3rd, herp 14th
2018: a&p 1st, microbe 8th, herp 13th :/
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Re: Protein Modeling C

Postby JoeyC » February 15th, 2019, 7:34 am

The prebuilds got nerfed. (worth less points now)
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Re: Protein Modeling C

Postby eagerlearner102 » February 16th, 2019, 9:45 am

Do any of you know where to buy mini toobers on Amazon? 3d molecular designs is very expensive. I want to practice for the onsite build.
2019 events: Protein Modeling, Sounds of Music, Fermi Questions
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Re: Protein Modeling C

Postby JoeyC » February 16th, 2019, 2:15 pm

You don't need mini toobers if you just want to practice; Stuff like
https://www.amazon.com/Leisure-Products-Soft-Twist-Garden/dp/B00D8GTKW2
works well too.
(and is a ton cheaper, mind you)
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Re: Protein Modeling C

Postby PeptoBismol » February 16th, 2019, 3:33 pm

Does anyone know in general how much graders care about the length of the residues for the onsite build? I was debating if I should mark the backbone every 2 cm at the competition, as I think it would be a waste of time. Plus, all the grading rubrics I have seen so far do not require that the residues need to be exactly 2 cm long.

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Re: Protein Modeling C

Postby JoeyC » February 16th, 2019, 6:43 pm

It's just a guideline from what I've seen. You could if you wanted, but I find it pretty hard to stick with the demarcations. They're mainly looking for the structure to look similar to the model, so if you can do that you should be fine.
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Re: Protein Modeling C

Postby ScienceRobo » February 17th, 2019, 3:07 pm

I've been reading through the provided papers papers to try and find "functionally relevant features." However, they mostly discuss specific amino acids. Are there any sources that I can use to find other things I could display, or is sticking with just amino acids fine?


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