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Thread Status: Active Total posts in this thread: 33
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cubes
World Community Grid Tech, Mapping Cancer Markers and Help Conquer Scientist Canada Joined: Mar 3, 2007 Post Count: 58 Status: Offline Project Badges:
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Not every crystallization trial/work unit produces a crystal. The success rate is under 1%. We are interested in all crystals. Most crystals grown in these trials are not X-ray-diffraction-quality, but indicate the cocktail is close to an optimum chemical condition.
As for what is diffraction-quality, visual inspection alone is not sufficient to tell. Some crystals that look dirty turn out to diffract well, and some gorgeous crystals diffract poorly, or turn out to be salt rather than protein. But large, clear, geometrically-ideal crystals are what a crystallographer will try first. Christian |
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sk..
Master Cruncher http://s17.rimg.info/ccb5d62bd3e856cc0d1df9b0ee2f7f6a.gif Joined: Mar 22, 2007 Post Count: 2324 Status: Offline Project Badges:
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I was unaware that you were still trying to identify optimal crystallization conditions. Presumably you are working on many different proteins. Roughly how many potential crystallization conditions does this project scan for each day? I would have thought (obviously not knowing everything you do about the project) that you would have first found near optimal conditions, then grow, and then scan for quality; optimal crystals, potential crystals, and not-so likely crystals. I thought we were just doing this last bit. If it would speed up the project, could volunteers download images to view and select in spare time - a click on the crystal sub-project. A scientist could then confirm they had crystals, and potentially use the finding to refine and support the main project. It wouldn't be any worse than looking at family albums!
----------------------------------------[Edit 2 times, last edit by skgiven at Jun 22, 2010 10:44:51 AM] |
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cubes
World Community Grid Tech, Mapping Cancer Markers and Help Conquer Scientist Canada Joined: Mar 3, 2007 Post Count: 58 Status: Offline Project Badges:
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Every protein in the study is initially tested against 1,536 chemical conditions. Some proteins will not crystallize at all, some will crystallize under one or two conditions, and a lucky few may crystallize under many conditions. Two different proteins will respond differently to the same chemical conditions, and the optimization process for each will differ. Our lab does deal with image data from optimization experiments, but that data is not being fed to the World Community Grid at the moment. The WCGrid is tackling the hard part, finding crystals in that initial 1,536 screen.
Predicting what cocktail will work on any given protein (prior to any crystallization screens) is still next to impossible. One very exciting benefit of this project is that the data gathered from these millions of experiments, and the patterns discovered therein, will help create a practical science of crystallization. Adding some human power to the project is a great idea, and one that we are considering for the future. Thank you all for your contribution to the project! Christian |
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sk..
Master Cruncher http://s17.rimg.info/ccb5d62bd3e856cc0d1df9b0ee2f7f6a.gif Joined: Mar 22, 2007 Post Count: 2324 Status: Offline Project Badges:
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A Mendeleev-esk table of crystallization would be an important achievement - perhaps in the long run, more so than the present research!
----------------------------------------[Edit 1 times, last edit by skgiven at Jun 24, 2010 6:05:04 AM] |
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l_mckeon
Senior Cruncher Joined: Oct 20, 2007 Post Count: 439 Status: Offline Project Badges:
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Borderline, but X0000081931434200702141932 may have lots of little crystals. Hard to see but the dots look a little more regular and hard edged that the usual crud.
http://www.flickr.com/photos/wombat_56/4731754834/ |
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cubes
World Community Grid Tech, Mapping Cancer Markers and Help Conquer Scientist Canada Joined: Mar 3, 2007 Post Count: 58 Status: Offline Project Badges:
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l_mckeon, those are indeed microcrystals. They occur when a protein-cocktail mixture is close to an ideal crystallization condition (protein is supersaturated, nucleation occurs spontaneously), but the nucleation rate is a bit too high --- tiny crystals appear everywhere at once, rather than in one lucky spot where the seed will slowly grow to full size.
Christian |
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ashrader330
Advanced Cruncher Joined: Jan 6, 2008 Post Count: 97 Status: Offline Project Badges:
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Christian, I believe I have another image with the micro crystals you mentioned. It is hard for me to tell because it looks like there is a film on the surface. Are the Help Conquer Cancer scientists interested in enough in images like this that we should post them when we see them?
----------------------------------------Work unit = X0000080740819200701021144 http://i47.tinypic.com/vg3nt2.jpg Thanks, Adam ![]() Run time: 4.2y HPF2, 6.9y FAAH, 7.9y HFCC, 20.8y HCC, 26.0y CEP2, 26.0y MCM, 2.1y UGM, 2.0y OET WU: 4.8k HPF2, 12.3k FAAH, 12.4k HFCC, 135k HCC, 34.3k CEP2, 43.8k MCM, 4.2k UGM, 19.7k OET |
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ashrader330
Advanced Cruncher Joined: Jan 6, 2008 Post Count: 97 Status: Offline Project Badges:
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I believe I have found 3 more crystal images.
----------------------------------------X0000030410733200404081128 X0000030411103200405061449 X0000030420178200404221607 Adam ![]() Run time: 4.2y HPF2, 6.9y FAAH, 7.9y HFCC, 20.8y HCC, 26.0y CEP2, 26.0y MCM, 2.1y UGM, 2.0y OET WU: 4.8k HPF2, 12.3k FAAH, 12.4k HFCC, 135k HCC, 34.3k CEP2, 43.8k MCM, 4.2k UGM, 19.7k OET |
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ashrader330
Advanced Cruncher Joined: Jan 6, 2008 Post Count: 97 Status: Offline Project Badges:
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---------------------------------------- ![]() Run time: 4.2y HPF2, 6.9y FAAH, 7.9y HFCC, 20.8y HCC, 26.0y CEP2, 26.0y MCM, 2.1y UGM, 2.0y OET WU: 4.8k HPF2, 12.3k FAAH, 12.4k HFCC, 135k HCC, 34.3k CEP2, 43.8k MCM, 4.2k UGM, 19.7k OET |
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cubes
World Community Grid Tech, Mapping Cancer Markers and Help Conquer Scientist Canada Joined: Mar 3, 2007 Post Count: 58 Status: Offline Project Badges:
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Adam,
Good eye, great crystals -- thanks! Christian |
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