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Foldit

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36: 437: 266:, a protein research scientist at the University of Washington, founded the Foldit project. Seth Cooper was the lead game designer. Before starting the project, Baker and his laboratory coworkers relied on another research project named Rosetta to predict the native structures of various proteins using special computer 508:
is calculated based on how well-folded the protein is, and a list of high scores for each puzzle is maintained. Foldit users may create and join groups, and members of groups can share puzzle solutions. Groups have been found to be useful in training new players. A separate list of group high scores
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credited Foldit's 57,000 players with providing useful results that matched or outperformed algorithmically computed solutions, stating "layers working collaboratively develop a rich assortment of new strategies and algorithms; unlike computational approaches, they explore not only conformational
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Similarly to Rosetta@home, Foldit is a means to discover native protein structures faster through distributed computing. However, Foldit has a greater emphasis on community collaboration through its forums, where users can collaborate on certain folds. Furthermore, Foldit's crowdsourced approach
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detailed a "crystallographic model-building competition between trained crystallographers, undergraduate students, Foldit players and automatic model-building algorithms" in which "a team of Foldit players achieved the most accurate structure" fitting a protein to the results of an
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Foldit's toolbox is mainly for the design of protein molecules. The game's creator announced the plan to add, by 2013, the chemical building blocks of organic subcomponents to enable players to design small molecules. The small molecule design system termed
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abilities to help solve the problem of protein structure prediction. 2016 puzzles are based on well-understood proteins. By analysing how humans intuitively approach these puzzles, researchers hope to improve the algorithms used by protein-folding software.
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compared "recipes" developed by Foldit players to Rosetta scripts developed by members of the Baker Lab at the University of Washington. The player-developed "Blue Fuse" recipe compared favorably with the scientists' "Fast Relax"
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where users manipulate simple protein-like structures and a periodically updated set of puzzles based on real proteins. It shows a graphical representation of each protein which users can manipulate using a set of tools.
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reported how Foldit players were able to "build protein structures into crystallographic, high-resolution maps more accurately than expert crystallographers or automated model-building algorithms" using data from
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places a greater emphasis on the user. Foldit's virtual interaction and gamification create a unique and innovative environment with the potential to greatly advance protein folding research.
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Foldit players have been cited collectively as "Foldit players" or "Players, F." in some cases. Individual players have also been listed as authors on at least one paper, and on four related
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Foldit's developers wanted to attract as many people as possible to the cause of protein folding. So, rather than only building a useful science tool, they used
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computationally designed the enzyme from scratch but found its potency needed improvement. Foldit players reengineered the enzyme by adding 13
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and Zoran Popović, computer science professors at the same university, to help conceptualize and build an interactive program, a
1553:"An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12" 249:
credited Foldit's 57,000 players with providing useful results that matched or outperformed algorithmically computed solutions.
953: 27: 239:) that can be applied to relevant proteins in the real world. Scientists can then use these solutions to target and eradicate 1833: 462: 697: 374:. However, determining how a given protein's primary structure becomes a functioning three-dimensional structure, how the 782: 757: 656:
described the analysis of proteins designed by Foldit players. Four player-designed proteins were successfully grown in
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Czech, Dutch, English, French, German, Hebrew, Indonesian, Italian, Polish, Romanian, Russian, Spanish, Scientist
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solutions are analyzed by researchers, who determine whether or not there is a native structural configuration (
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Since 2008, Foldit has participated in Critical Assessment of Techniques for Protein Structure Prediction (
1808: 718:(VHL). Results of the VHL experiment were presented in a March 2023 preprint paper and at an August 2023 1853: 663: 639: 631: 625: 580: 274: 1740: 1803: 1798: 1621: 1564: 1505: 1492:
Horowitz S, Koepnick B, Martin R, Tymieniecki A, Winburn AA, Cooper S, et al. (September 2016).
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Horowitz S, Koepnick B, Martin R, Tymieniecki A, Winburn AA, Cooper S, et al. (September 2016).
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Gilski M, Kazmierczyk M, Krzywda S, Zábranská H, Cooper S, Popović Z, et al. (November 2011).
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Keasar C, McGuffin LJ, Wallner B, Chopra G, Adhikari B, Bhattacharya D, et al. (July 2018).
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reviewed the collaboration between Foldit players and teams in the WeFold consortium in biennial
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Khatib F, DiMaio F, Cooper S, Kazmierczyk M, Gilski M, Krzywda S, et al. (September 2011).
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Rocklin GJ, Chidyausiku TM, Goreshnik I, Ford A, Houliston S, Lemak A, et al. (July 2017).
501:(the inclusion of gaming elements) to make Foldit appealing and engaging to the general public. 1665:
Khatib F, Desfosses A, Koepnick B, Flatten J, Popović Z, Baker D, et al. (November 2019).
1698: 1667:"Building de novo cryo-electron microscopy structures collaboratively with citizen scientists" 1647: 1590: 1533: 1474: 1399: 1350: 1301: 1238: 1181: 1124: 978: 908: 667: 560: 549: 521: 411: 340: 297: 212: 161: 108: 1321:"Crystal structure of a monomeric retroviral protease solved by protein folding game players" 1688: 1678: 1637: 1629: 1580: 1572: 1523: 1513: 1464: 1456: 1389: 1381: 1340: 1332: 1291: 1281: 1228: 1220: 1171: 1163: 1144:"Global analysis of protein folding using massively parallel design, synthesis, and testing" 1114: 1106: 1095:"Reducing the computational complexity of protein folding via fragment folding and assembly" 1006: 898: 890: 841: 652: 530: 407: 352: 245: 172: 99: 732: 216: 165: 1625: 1568: 1509: 1445:"Increased Diels-Alderase activity through backbone remodeling guided by Foldit players" 1216: 1159: 886: 1693: 1666: 1642: 1609: 1585: 1552: 1528: 1493: 1469: 1444: 1443:
Eiben CB, Siegel JB, Bale JB, Cooper S, Khatib F, Shen BW, et al. (January 2012).
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Cooper S, Khatib F, Treuille A, Barbero J, Lee J, Beenen M, et al. (August 2010).
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Khatib F, Cooper S, Tyka MD, Xu K, Makedon I, Popovic Z, et al. (November 2011).
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reported that Foldit gamers achieved the first crowdsourced redesign of a protein, an
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Koepnick B, Flatten J, Husain T, Ford A, Silva DA, Bick MJ, et al. (June 2019).
777: 301: 351:, advances in treating disease, and solutions for other real-world problems such as 1758: 792: 752: 737: 691: 498: 278: 236: 232: 224: 35: 1419:"Gamers Decode AIDS Protein That Stumped Researchers For 15 Years In Just 3 Weeks" 1046: 957:"Protein-folding game taps power of worldwide audience to solve difficult puzzles" 335:
Protein structure prediction is important in several fields of science, including
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Proceedings of the National Academy of Sciences of the United States of America
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Results from Foldit have been included in a number of scientific publications.
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Many of the same people who created Rosetta@home worked on Foldit. The public
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The process by which living beings create the primary structure of proteins,
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Screenshot of the Foldit application showing a folding puzzle in progress
1518: 1370:"High-resolution structure of a retroviral protease folded as a monomer" 1224: 894: 26: 1110: 747: 658: 613: 509:
is maintained, as well as two leaderboards for groups and individuals.
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and create biological innovations. A 2010 paper in the science journal
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Some Rosetta@home users became frustrated when they saw ways to solve
223:, Center for Game Science, in collaboration with the UW Department of 1759:"Drugit: Crowd-sourcing molecular design of non-peptidic VHL binders" 1494:"Determining crystal structures through crowdsourcing and coursework" 1460: 1201:"Determining crystal structures through crowdsourcing and coursework" 742: 593: 576: 320:
version was released in May 2008 and has 240,000 registered players.
209: 864: 862: 1047:"Computer game's high score could earn the Nobel Prize in medicine" 812: 564: 356: 219:. It is part of an experimental research project developed by the 116: 112: 926: 644: 540: 324: 231:
as perfectly as possible, using tools provided in the game. The
227:. The objective of Foldit is to fold the structures of selected 1069:"Online Gamers Achieve First Crowd-Sourced Redesign of Protein" 842:"In a Video Game, Tackling the Complexities of Protein Folding" 871:"Predicting protein structures with a multiplayer online game" 430: 1374:
Acta Crystallographica. Section D, Biological Crystallography
1718:"FoldIt game's next play: crowdsourcing better drug design" 927:"Rosetta Commons: The hub for Rosetta modeling software" 535:
space but also the space of possible search strategies".
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Comparison of software for molecular mechanics modeling
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Haspel N, Tsai CJ, Wolfson H, Nussinov R (June 2003).
273:. Rosetta was eventually extended to use the power of 1270:"Algorithm discovery by protein folding game players" 54:, Center for Game Science, Department of Biochemistry 824:
University of Washington, Department of Biochemistry
189: 171: 155: 135: 122: 98: 80: 58: 45: 1775: 285:, and displayed its protein-folding progress as a 194: 813:University of Washington, Center for Game Science 620:, increasing its activity by more than 18 times. 1824:Lua (programming language)-scripted video games 1610:"De novo protein design by citizen scientists" 579:in only ten days that is accurate enough for 8: 1741:"VHL puzzle series paper preprint released!" 548:In 2011, Foldit players helped decipher the 19: 1002:"Gamers Unravel the Secret Life of Protein" 465:. Unsourced material may be challenged and 1859:Video games developed in the United States 34: 25: 18: 1692: 1682: 1641: 1584: 1527: 1517: 1468: 1393: 1344: 1325:Nature Structural & Molecular Biology 1295: 1285: 1232: 1175: 1118: 902: 485:Learn how and when to remove this message 1062: 1060: 1058: 805: 835: 833: 831: 504:As a protein structure is modified, a 281:program was made available for public 788:Protein structure prediction software 289:. Its results were sent to a central 7: 949: 947: 528:An August 2010 paper in the journal 463:adding citations to reliable sources 1829:Structural bioinformatics software 716:Von Hippel-Lindau tumor suppressor 608:in the Center for Game Science at 14: 1739:Moretti, Rocco (March 15, 2023). 974:"Biologists Enlist Online Gamers" 666:. The proteins were added to the 689:In November 2019, an article in 435: 183:for academic and non-profit use 1067:Marshall J (January 22, 2012). 954:Howard Hughes Medical Institute 647:competitions CASP11 and CASP12. 1: 1819:Human-based computation games 402:Foldit attempts to apply the 1716:Hersher R (April 13, 2012). 1684:10.1371/journal.pbio.3000472 840:Markoff J (10 August 2010). 783:Protein structure prediction 758:Human-based computation game 623:A September 2016 article in 418:Foldit includes a series of 268:protein structure prediction 1417:Praetorius D (2011-09-19). 538:A November 2011 article in 1875: 1577:10.1038/s41598-018-26812-8 1634:10.1038/s41586-019-1274-4 1386:10.1107/S0907444911035943 1000:Bohannon J (2009-04-20). 720:American Chemical Society 561:Mason-Pfizer monkey virus 143: 94: 76: 33: 24: 1050:University of Washington 972:Bourzac K (2008-05-08). 610:University of Washington 221:University of Washington 52:University of Washington 1776:official Foldit website 1287:10.1073/pnas.1115898108 1168:10.1126/science.aan0693 637:A July 2018 article in 662:and then "solved" via 650:A June 2019 letter in 64:; 16 years ago 1834:Computational biology 1498:Nature Communications 1205:Nature Communications 664:X-ray crystallography 640:Nature Communications 632:X-ray crystallography 626:Nature Communications 598:Diels–Alder reactions 581:molecular replacement 406:'s three-dimensional 275:distributed computing 1449:Nature Biotechnology 722:conference session. 459:improve this section 368:protein biosynthesis 1626:2019Natur.570..390K 1569:2018NatSR...8.9939K 1519:10.1038/ncomms12549 1510:2016NatCo...712549H 1423:The Huffington Post 1225:10.1038/ncomms12549 1217:2016NatCo...712549H 1160:2017Sci...357..168R 1073:Scientific American 895:10.1038/nature09304 887:2010Natur.466..756C 604:. A team including 602:synthetic chemistry 596:that catalysed the 589:Scientific American 398:Virtual interaction 21: 1814:Puzzle video games 1557:Scientific Reports 1111:10.1110/ps.0232903 931:RosettaCommons.org 846:The New York Times 763:Molecular graphics 714:was tested on the 705:Future development 563:(M-PMV), a monkey 349:proteins by design 298:protein structures 293:for verification. 1849:Protein structure 1839:Molecular biology 1620:(7761): 390–394. 1380:(Pt 11): 907–14. 1337:10.1038/nsmb.2119 1154:(6347): 168–175. 979:Technology Review 668:Protein Data Bank 586:In January 2012, 550:crystal structure 522:Protein Data Bank 495: 494: 487: 412:spatial reasoning 341:molecular biology 213:puzzle video game 203: 202: 162:Puzzle video game 146:List of languages 1866: 1794:2008 video games 1763: 1762: 1755: 1749: 1748: 1736: 1730: 1729: 1727: 1725: 1713: 1707: 1706: 1696: 1686: 1677:(11): e3000472. 1662: 1656: 1655: 1645: 1605: 1599: 1598: 1588: 1548: 1542: 1541: 1531: 1521: 1489: 1483: 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Index



Developer(s)
University of Washington
Preview release
Perpetual beta
Operating system
Cross-platform
Windows
macOS
Linux
Size
MB
Type
Puzzle video game
protein folding
License
Proprietary
freeware

fold.it
online
puzzle video game
protein folding
University of Washington
Biochemistry
proteins
highest scoring
native state
diseases

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