Re:AlphaFold reveals the structure of the protein universe
by dekhn on Thursday July 28, 2022 @12:05PM
(#32266241)
No organisms have virtually 0 sequence identity. That's nonsense. Can you give an example? n Even some random million-year-isolated archae shares the majority of its genes with common bacteria.
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Re:AlphaFold reveals the structure of the protein universe
by biomcgary on Thursday July 28, 2022 @01:20PM
(#32267439)
Organisms, yes. Individual genes within an organism may have no sequence identity to genes in other organisms (outside of what you would expect at random). See: https://en.wikipedia.org/wiki/Orphan_gene
Re:AlphaFold reveals the structure of the protein universe
by dekhn on Thursday July 28, 2022 @01:24PM
(#32267499)
Yes, that's what I thought. I worked with m. genitalium and we were always looking for proteins that had no homology or no existing structure (https://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.20...)
Re:AlphaFold reveals the structure of the protein universe
by COGlory on Thursday July 28, 2022 @05:41PM
(#32270443)
MKVLMKKESLPIVKPFDEVIIEVLQAPKEVEREVALKDGTIKKIQDYSIIVKPVSGKFESVTEKVTSKTEDGDEVVKPKKYDASELKDKVVMKLTQKAFEVLYDAWQNKEIGEGTKLKIKVTKKQNKTYFDEITVLDEKEEEETEEEAKVKPKPKLKG
Re:AlphaFold reveals the structure of the protein universe
by dekhn on Thursday July 28, 2022 @06:01PM
(#32270599)
That's a single protein not an organism.
Re:AlphaFold reveals the structure of the protein universe
by andrewflnr on Thursday July 28, 2022 @09:10PM
(#32271975)
They obviously mean organisms that have notable numbers of proteins with virtually no sequence identity. The difference is only germane to the conversation if you're looking for something to nitpick. The only point of bringing it up was that they encounter non-trivial numbers of really weird proteins.