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L3 frameshift
| Link to this post | posted 19 Dec, 2024 22:47 | |
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In some of the L3 phages the chaperone protein frameshift is annotated as a +1 frameshift and in others it is annotated as a -2 frameshift. When annotated as a -2 frameshift, the sequence is HFFFGSK. When annotated as a +1 frameshift the sequence is HFFGSK. Both seem equally feasible. Is there any mass spec evidence that one is more likely than the other? The slippery sequence is TTTTTTC…but it involves a shift from the 2nd reading frame to the 1st instead of a shift from the 2nd reading frame to the 3rd. |
| Link to this post | posted 20 Dec, 2024 03:42 | |
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Christine, With no experimental evidence, it is difficult to say which it is, but it is thought that the +1 frameshift is far more common than the -2. So that is what I would annotate. There are a lot of unannotated frameshifts in this subcluster, mostly becsuse we made a decision to only annotate those sequences found in the literature. (See the guide for the list). However, this sequence is so well conserved, i think it can be called. debbie |
| Link to this post | posted 20 Dec, 2024 18:25 | |
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Thanks for getting back to me, Debbie. I suspected that the +1 was probably the way to go and am happy to see that I was on the right track! |
| Link to this post | posted 20 Dec, 2024 18:25 | |
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Thanks for getting back to me, Debbie. I suspected that the +1 was probably the way to go and am happy to see that I was on the right track! |