I was wondering if anyone could give me a short explaination as to how I might identify what kind of proteins and structures my computer has been working on? I am new to the site and project, but have been running my computer basically nonstop on boinc to help the cause. Thanks for the time in advance.

I was wondering if anyone could give me a short explaination as to how I might identify what kind of proteins and structures my computer has been working on? I am new to the site and project, but have been running my computer basically nonstop on boinc to help the cause. Thanks for the time in advance.

Rosetta gave me a way of helping Science investigate proteins. I originally just hoped that the work would one day lead to a cure for Multiple Myeloma, probably too late for me, but it would help others. After a year of so, I am gradually assimilating some of the knowledge included in these posts, home pages and published articles.
I can see now that protein folding has wider ramifications than my own need, but all the various aims would appear to inter-react. Drawing different scientific specialities together will inevitably help to trigger fresh ideas to the overall good of Rosetta. So I am delighted to let Rosetta download any work units for which it considers my computer suitable.
My sincere thanks to every person running Rosetta, for I know some of your work units will be leading towards a cure for my cancer.

what you just said cole is the exact reason that I began running R@H on my PC, I hope that we may collectively advance the science and understanding of proteins to work towards a variety of cures. If possible i was hoping someone could tell me how i might identify the protein chains i am seeing on my screensaver, as i am interested in looking up some info about the folding on my own.

what you just said cole is the exact reason that I began running R@H on my PC, I hope that we may collectively advance the science and understanding of proteins to work towards a variety of cures. If possible i was hoping someone could tell me how i might identify the protein chains i am seeing on my screensaver, as i am interested in looking up some info about the folding on my own.

well ill give it a try

ill try to explain what i know of the codes my pc is now crunching on

it seems to me that the protein your working on is identifyed by the numbers that your WU tag ends with, the firts words are mostly what that WU is gonna do, or to wich family it belongs.

for example :
mcr1__BOINC_SYMM_FOLD_AND_DOCK_RELAX-mcr1_-mfr__2128_129140_0_0

SYMM, i guess is the abreviation of symmetric, so the 2 ends have to be identical
FOLD AND DOCK, this stands for folding and docking, the way the chains are builded and stored in real life
RELAX, stands for the phase boinc has to do, here it only makes tiny moves everytime, the startingpoints already have been decided.
which leaves the code, and since i have found out anything about the name this WU is about, that should be the ID for the proteins.

There is a lot of information in the work units log.

The proteins that have known structures have a 4 character abbreviation which you will find in the task name. Or sometimes it is the 4 character abbreviation followed by an "A" or a "B".

If you look at the older entries in the log, you will see links to a protein database site for more info. on each protein. If you click any of them and go to the site, you can search on other protein identifiers.

You will find many of them are mondane things like yeasts and ecoli. Remember, the goal is to learn how to make an accurate prediction. And in order to really test what you've learned, you have to try and apply the technique against a wide variety of proteins, not just cancer, or just HIV, etc.

In the case of the mcr1, it appears to be a reference to a study of protein 2js5 that was done using Nuclear Magnetic Resonance (NMR) to gather data about the protein's structure. Using Rosetta, in addition to this data was the topic of the recent article in Nature. It seems this link has changed to require a signon now. Sorry.

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Rosetta Moderator: Mod.Sense

thanks alot for the explaination, ill go dig through that log when i have time. I also noticed today that in my log were several processes titled, "ferreodoxin-like" which i figure has something to do with the metabolic iron-protein of the same name. All interesting stuff.

Mod.Sense
Forum moderator

'There is a lot of information in the work units log.'

This is why members have been requesting you update the Active WU Log since Sept. It is now been 202 days, almost 7 months since its been updated. New and old members want this inforamtion to help feel like they are contributing.

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Jmarks

Jmarks, I understand the request for more information. But I have no knowledge beyond what you see on the boards to do such updates my self. So we will have to wait for someone from the Project Team to do so.

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Rosetta Moderator: Mod.Sense

Jmarks, I understand the request for more information. But I have no knowledge beyond what you see on the boards to do such updates my self. So we will have to wait for someone from the Project Team to do so.

Thanks for responding quickly. Maybe you could remind the Team that it needs updating.

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Jmarks

that link that you provided was of great help Mod.sense, thank you for the reply. For those who dont know, the database allows you to search for proteins based upon the tag contained in the work-unit name. It gives a picture, background, and information on its state. For example, i noticed my computer folding Ubiquitin, a protein involved in marking other proteins for destruction, as well as several metabolic proteins.