Timeline for What is the secondary structure distribution per AA in the Human proteome?
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| Mar 14, 2017 at 17:45 | history | tweeted | twitter.com/StackBiology/status/841706904816607232 | ||
| Mar 14, 2017 at 16:30 | comment | added | gilleain | A major problem with my answer is the distribution of folds. If genomes were packed full of helical bundles, then the proportion of helix would go up. Presumably an organism with a lot of excreted extracellular proteins (that tend to have little secondary structure) would have a higher proportion of coil, and so on. | |
| Mar 14, 2017 at 16:28 | comment | added | gilleain | The only answer I could give is very vague, unfortunately. The distributions are not equal because these three SSE types play quite different roles in 3D structures. Sheets usually form in the core of a folded structure, and are short. Helices tend to pack around the outside, and can be longer. 'Coil' is everything else, and covers structure like long loops. | |
| Mar 14, 2017 at 14:01 | comment | added | terdon | While I strongly object to the tone of the answer you've received so far, I see no reason whatsoever to assume an equal distribution. The properties of the different structures are not the same, so it doesn't make sense to expect such a distribution. Some explanation of why you would make such an assumption might be a helpful addition to your question. | |
| Mar 14, 2017 at 13:42 | answer | added | David | timeline score: 2 | |
| Mar 14, 2017 at 13:42 | comment | added | Gábor Erdős | A percent of amino acids in each secondary structure. I am just not really believing by own results, as far as i remember from the university these should be near equal (or like little bias). there are aprox 20k proteins in the human proteome, if we say each consist of 500 AA, we roughly get 10 million amino acids, which is in contrast with my results, as i get 6 million AAs in coils, 3 million in helix, and 1 million in sheets. | |
| Mar 14, 2017 at 12:59 | comment | added | terdon | I'm not sure what you're asking here. You seem to have answered your own question about the distribution (interesting, by the way!). So, by your own data, it is obviously biased. I don't know much about proteins, I'm a genomics person, but why would you assume no bias? Also, are you looking percent of total amino acids? Percent of total protein in each conformation? A bit more detail would be helpful. | |
| Mar 14, 2017 at 12:56 | history | edited | terdon | CC BY-SA 3.0 |
edited body
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| Mar 14, 2017 at 12:50 | history | edited | another 'Homo sapien' | CC BY-SA 3.0 |
Improved formatting
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| Mar 14, 2017 at 12:34 | history | asked | Gábor Erdős | CC BY-SA 3.0 |