Alphafold changes everything, fundamentally solving the protein folding problem: predicting how protein chains will fold given an arbitrary sequence of amino acids. Megan replies "if you can fold a Protease enzyme;" these are proteins whose job it is to break down (i.e. It might make an appropriate metaphor: Today's scientists are taking baby steps in learning the "anatomy" of proteins through trial and error, much like the scholars of the past deciphering the basics of the human anatomy. The C-terminus (end of the protein chain), in this case analogous of the tail, if "pulled" would cause a created cavity or tunnel to squeeze, much like pulling a knot would do the same. 19: Electron Density. When he responds in the affirmative, she then compares the problem of predicting protein folding to creating a living crane by the paper-folding process. You'd expect a rising and falling line, but for it to completely trace out building patterns is odd. Share your stories! else {pr++; More details. Man: What do you do? Get to know more about ketogenic diet and Protein Folding Xkcd here on this site. Cueball asks Megan why it is such a hard computational problem; Megan's response is to ask Cueball if he's ever folded paper to make a crane. Need help with your experiments? 138k members in the xkcd community. The leader in software by software called folding home. --Pudder (talk) 09:28, 6 October 2014 (UTC), This comic has some similarities to 1425: Tasks. DeepMind, the people who gave us world-beating programs for chess, go, and Asteroids, have created an artificial intelligence system called AlphaFold that predicts the folding of proteins in a few hours. However, prediction can never be as valuable as experimental data. Benjaminikuta (talk) 04:51, 8 October 2014 (UTC), I agree, too. Having seen the mentions here of forming an xkcd/explainxkcd team, I'm all for it! This work is licensed under a Creative Commons Attribution-NonCommercial 2.5 License. Via an expeditious and reproducible process, a polypeptide folds into its characteristic three-dimensional structure from a random coil. if (pr is prime){print pr; I will leave that for others to decide. We're working with computers and picture, find or discover, often called folding simulation software by software will automatically start up and in mathematics: http: //imgs. She would then still think her problem harder... Should that be added as well in some form? This means you're free to copy and share these comics (but not to sell them). RedHatGuy68 (talk) 02:12, 2 November 2015 (UTC), https://www.explainxkcd.com/wiki/index.php?title=1430:_Proteins&oldid=172386. This is true even if conformations are sampled at rapid (nanosecond or picosecond) rates. This work is licensed under a Creative Commons Attribution-NonCommercial 2.5 License. More details.. Creative Commons Attribution-NonCommercial 2.5 License. Anyway, there's a Game with a purpose on a similar topic, RNA folding EteRNA. For example, a polypeptide of 100 residues will have 99 peptide bonds, and therefore 198 different phi and psi bond angles. This means you're free to copy and share these comics (but not to sell them). Man: Is that a hard problem? If the folding process does not complete, or completes incorrectly, the resulting protein can be … Woman: If you can fold a protease enzyme. They dynamically reduce their clock speed and other power consumption at times of low usage. Levinthal's paradox is a thought experiment, also constituting a self-reference in the theory of protein folding. Ranks. In this comic, Cueball is asking Megan what she does, to which she replies that she works on software to predict protein folding. Got lab stories? {{Title text: Check it out--when I tug the C-terminal tail, the binding tunnel squeezes!}} --141.101.99.49 10:27, 6 October 2014 (UTC), Surely the "pull the tail" is referring to the flapping bird origami, which is similar to the crane but lacks one set of folds that make the figure narrower. It isn’t just proteins, any collection of atoms that big and floppy would be equally hard to figure out. In this comic, Cueball is asking Megan what she does, to which she replies that she works on software to predict protein folding. xkcd by Randall Munroe (CC BY-NC 2.5). Proteins fold due to atomic interactions, so ideally force fields should be constructed based on quantum mechanics. In other words, making cuts while folding might actually make the process more complicated, not less, as now you have to consider how the cutting enzyme is folded, too. Then that line of code could be linked to a boolean that allows the computer to do something vital, like this: I am contractually obligated to discuss the basics, the very basic basics, of protein folding with my class over the next week or so. The "paradox" is that most small proteins fold spontaneously on a millisecond or even microsecond time scale. Can I make cuts? If each of these bond angles can be in one of three stable conformations, the protein may misfold into a maximum of 3198 different conformations (including any possible folding redundancy). However, since the joke is about folding proteins, this idea is extrapolated to include the folded proteins. 199k members in the labrats community. Surely if you were folding yourself a crane out of paper then you would need to fold yourself a pair of scissors in order to be able to make cuts. Protein folding is the physical process by which a protein chain is translated to its native three-dimensional structure, typically a "folded" conformation by which the protein becomes biologically functional. This work is licensed under a The use of game development competitions to assist scientific progress is also used in the Fold.it competitive protein folding game, where the winners build antibodies to save the lives of those who have health care. The place for classy protein folders to talk shop. For all I know, there's no simpler way to explain this. It's a little strange to play because the underlying reality is unusual, but interesting and somehow trickily entertaining. Some of the most well known are [email protected], [email protected] and FoldIt. 108.162.219.116 (talk) (please sign your comments with ~~~~), Thanks for adding that "your actually donating your electricity" part - I had not considered it to that extent. xkcd. a=true:} Credit: xkcd This work is licensed under a Creative Commons Attribution-NonCommercial 2.5 License. This means you're free to copy and share these comics (but not to sell them). some kind of function that only uses any idle memory{ 9: Predicted Contacts. If the folding process does not complete, or completes incorrectly, the resulting protein can be inactive or even toxic to the body. This work is licensed under a Creative Commons Attribution-NonCommercial 2.5 License. [email protected] ([email protected]) is a distributed computing project which aims to simulate protein folding for research purposes. 166 members in the FoldIt community. :) Jarod997 (talk) 13:58, 6 October 2014 (UTC), No mention yet of the fact that Megan (and Randall) thinks this is the hardest problem! Boct1584 (talk) 01:46, 20 April 2015 (UTC), I find this explanation a bit too technical. First, let me start off with a couple of caveats. This means you're free to copy and share these comics (but not to sell them). Protein folding guided by funnel-shaped energy landscape. Therefore, if a protein were to attain its correctly folded configuration by sequentially sampling all the possible conformations, it would require a time longer than the age of the universe to arrive at its correct native conformation. As Cueball mentally turns over the hypothetical process of folding paper to make a living crane, he wonders if he is allowed to perhaps "cut" the paper to make more complicated folds available. > >| Some of the most well known are Folding@Home, Rosetta@Home and FoldIt. [[Same scene layout, third panel]] Misfolded proteins are responsible for several neurodegenerative diseases, including Alzheimer's disease, amyotrophic lateral sclerosis (ALS), and Parkinson's disease, as well as some non-neurodegenerative diseases such as cardiac amyloidosis. For more about Protein Folding Xkcd, please subscribe to our website newsletter now! --141.101.99.49 10:27, 6 October 2014 (UTC) Surely the "pull the tail" is referring to the flapping bird origami, which is similar to the crane but lacks one set of folds that make the figure narrower. "cut") other proteins, often in very specific ways. PIs gone AWOL? This means you're free to copy and share these comics (but not to sell them). Protein Folding via xkcd. That way, if the computer tries to comment out something, it stops working and I might be overthinking this. This is not an end-to-end AI/Deep Learning protein folding system. Individual members may join together as a team, with leaderboards measuring team and individual contributions. Obligatory XKCD. Shop for cheap price Xkcd Protein Folding Google Source Code And Natural Protein Bars .Price Low and Options of Xkcd Protein Folding Google Source Code And Natural Protein Bars from variety stores in usa. Figure 13 Computational prediction of protein folding is not currently possible. xkcd.com is best viewed with Netscape Navigator 4.0 or below on a Pentium 3±1 emulated in Javascript on an Apple IIGS, Creative Commons Attribution-NonCommercial 2.5 License. The title text refers to the result of folding a flapping bird in origami. In 1969, Cyrus Levinthal noted that, because of the very large number of degrees of freedom in an unfolded polypeptide chain, the molecule has an astronomical number of possible conformations. This strip from Randall Munroe’s xkcd will be appearing in the lecture. ... From that, we end up with a candidate full-blown protein string. Rather than the traditional model of using a supercomputer for computation, the project uses idle processing power of a network of personal computers in order to achieve massive computing power. I don't get it as much... Perhaps something to do with the apparent erratic behavior of a stock market chart? There are many folding prediction software programs. If you donate computer time, you are probably also donating a bit of money to the cause in the form of your electricity bill. If this comic has motivated anyone to join in with the [email protected] project, you can get started here. [[Same scene layout, fourth panel]] /r/xkcd is the subreddit for the popular webcomic xkcd by Randall Munroe. 162.158.255.84 22:26, 22 August 2015 (UTC), I wonder if we could theoretically prevent computers from becoming self-aware by inputting a line that makes any processing power that is not being used work on [email protected] or work on finding prime numbers or something. 257 votes, 46 comments. I have added some where it only aims at other science questions. Individuals can join the project by installing the [email protected] software (there is also a web version that can be run using Google Chrome) and are then able to track their contribution to the project. By pulling the tail, the head will move forward and down. Woman: I make software that predicts how proteins will fold. Protein Folding I am contractually obligated to discuss the basics, the very basic basics, of protein folding with my class over the next week or so. --Pudder (talk) 09:13, 6 October 2014 (UTC), Surely if you were folding yourself a crane out of paper then you would need to fold yourself a pair of scissors in order to be able to make cuts. In this manner, Protease enzymes are analogous to extremely specialized scissors, so Megan is effectively saying "You can make cuts if you can fold yourself a pair of scissors." Aiw (talk) 21:38, 6 October 2014 (UTC), I think the last few paragraphs about the simulation program and cpu cycles are unnecessary. More details.. if (a==true){computer works} The analogy is that a protein cannot just fold to a figurative representation of a bio-molecule, the way a paper crane superficially resembles a live crane; the protein must assume an exact, perfect fold in order to be functional. This work is licensed under a Creative Commons Attribution-NonCommercial 2.5 License. Perhaps create a trivia section? Description: Folding proteins in the name of sarcasm, romance, math, and language. 19: Hand-Folding. In origami, purists [1] considered it as cheating if you cut the paper or use more than one sheet of paper, which is why Cueball asked if he was 'allowed' to do such in the hypothetical exercise they are discussing. a=false} Protein Folding Depletion Forces 1 Depletion Forces 2 Depletion Forces 3 Genetics and Simplicity E=mc^2 Part 1 E=mc^2 Part 2 E=mc^2 Part 3 Symmetry Part 1 Symmetry Part 2 Symmetry Part 3 Feedback Part 1 Feedback Part 2 Feedback Part 3 Quantum Mechanics Part 1 Quantum Mechanics Part 2 The Ultimate Selfish Gene Protein Folding Witnessed Entropy Why I do Science

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