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Resource:Foldit

Name: Resource:Foldit
Description: Foldit is a revolutionary new multiplayer online computer game that engages non-scientists in solving hard prediction problems, enabling you to contribute to important scientific research. Foldit players interact with protein structures using direct manipulation tools and user-friendly versions of algorithms from the Rosetta structure prediction methodology, while they compete and collaborate to optimize the computed energy.

Here are the basic principles to keep in mind when folding proteins. Your score on each protein is based on how well you do with these three things:

  1. Pack the protein: The smaller the protein, the better. More precisely, you want to avoid empty spaces (voids) in the structure of the protein where water molecules can get inside. So you want the atoms in the protein to be as close together as possible. Certain structures, such as sheets, will even connect together with hydrogen bonds if you line them up right and get them close together. This is also good. Key word: Compact.
  2. Hide the hydrophobics: Hydrophobics are the sidechains that don't want to be touching water, just like oil or wax. Since most proteins float around in water, you want to keep the hydrophobics (orange sidechains) surrounded by as many atoms as possible so the water won't get to them. The other side of this rule is that hydrophilics (blue sidechains) do want to be touching water, so they should be exposed as much as possible. Key word: Buried.
  3. Clear the clashes: Two atoms can't occupy the same space at the same time. If you've folded a protein so two sidechains are too close together, your score will go down a lot. This is represented by a red spiky ball (clash) where the two sidechains are intersecting. If there are clashes, you know something is wrong with your protein. So make sure everything is far enough apart. Key word: Apart.
The current series of Science Puzzles, the Grand Challenges, are meant to generate the evidence needed to prove that human protein folders can be more effective than computers at certain aspects of protein structure prediction. That's what all the puzzles in Foldit are about right now: predicting the structure of a protein based on its amino acid sequence. The three rules mentioned above describe the characteristics of correct protein structures.[1]
Other Name(s): Fold It, Foldit: Solve Puzzles for Science
Abbreviation: Foldit
Parent Organization: University of Washington; Washington; USA
Supporting Agency: NSF, DARPA, Howard hughes medical institute, Microsoft, NVIDIA
Grant: IIS0811902, 0906026, N00173-08-1-G025
Resource Type(s): Community building portal, Software resource
Resource: Resource
URL: http://fold.it/
Id: nlx_143530
PMID: PMID 20686574
Keywords: crowd-source
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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References

  1. Cooper S et al. (2010) Predicting protein structures with a multiplayer online game. Nature 466: 756-60 PubMed

Notes

This page uses this default form:Resource

Contributors

Aarnaud



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Facts about Resource:FolditRDF feed
AbbrevFoldit  +
CurationStatuscurated  +
DefiningCitationhttp://fold.it/  +
DefinitionFoldit is a revolutionary new multiplayer Foldit is a revolutionary new multiplayer online computer game that engages non-scientists in solving hard prediction problems, enabling you to contribute to important scientific research. Foldit players interact with protein structures using direct manipulation tools and user-friendly versions of algorithms from the Rosetta structure prediction methodology, while they compete and collaborate to optimize the computed energy.

Here are the basic principles to keep in mind when folding proteins. Your score on each protein is based on how well you do with these three things:

  1. Pack the protein: The smaller the protein, the better. More precisely, you want to avoid empty spaces (voids) in the structure of the protein where water molecules can get inside. So you want the atoms in the protein to be as close together as possible. Certain structures, such as sheets, will even connect together with hydrogen bonds if you line them up right and get them close together. This is also good. Key word: Compact.
  2. Hide the hydrophobics: Hydrophobics are the sidechains that don't want to be touching water, just like oil or wax. Since most proteins float around in water, you want to keep the hydrophobics (orange sidechains) surrounded by as many atoms as possible so the water won't get to them. The other side of this rule is that hydrophilics (blue sidechains) do want to be touching water, so they should be exposed as much as possible. Key word: Buried.
  3. Clear the clashes: Two atoms can't occupy the same space at the same time. If you've folded a protein so two sidechains are too close together, your score will go down a lot. This is represented by a red spiky ball (clash) where the two sidechains are intersecting. If there are clashes, you know something is wrong with your protein. So make sure everything is far enough apart. Key word: Apart.
The current series of Science Puzzles, the Grand Challenges, are meant to generate the evidence needed to prove that human protein folders can be more effective than computers at certain aspects of protein structure prediction. That's what all the puzzles in Foldit are about right now: predicting the structure of a protein based on its amino acid sequence. The three rules mentioned above describe the characteristics of correct protein structures.
acteristics of correct protein structures.
ExampleImageFoldit.PNG  +
GrantCategory:IIS0811902   +, Category:0906026   +, and Category:N00173-08-1-G025   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleCommunity building portal  +, and Software resource  +
Idnlx_143530  +
Is part ofUniversity of Washington; Washington; USA  +
KeywordsCrowd-source  +
LabelResource:Foldit  +
ModifiedDate28 September 2011  +
PMID20686574  +
Page has default formThis property is a special property in this wiki.Resource  +
SuperCategoryResource  +
Supporting AgencyNSF  +, DARPA  +, Howard hughes medical institute  +, Microsoft  +, and NVIDIA  +
SynonymFold It  +, and Foldit: Solve Puzzles for Science  +