How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
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4 weeks ago
Jacky • 0

Hello everyone, I've encountered an issue in my studies. I'm trying to retrieve wheat lysine non-acetylated sequences from the UniProt database. I've attempted an advanced search, but couldn't find a direct way to do it. Can anyone offer some advice? Thank you very much!

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lysine non-acetylated sequences

what does it look like in uniprot ? give us an example with a uniprot identifier.

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I'm sorry, I didn't explain it clearly. Below are my operational steps: I enter 'Triticum aestivum' in the search box and perform a search. From the search results, I select one or more specific protein entries and click on the name to view detailed information. I find the 'PTM / Processing' section, where all known post-translational modifications, including acetylation, are listed. Then in the 'Sequence' section, I view or download the complete amino acid sequence of the protein. According to my operational steps, I can find the sequence of acetylated lysine, but what I need is the sequence of non-acetylated lysine.

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You can't. The data does not exist. UniProt only annotates where a lysine is know to be acetylated. There is no way that UniProt can know which lysine's are never acetylated. (Very hard to prove a negative, so nothing in the literature allows UniProt curators to state this). In other words we can't distinguish between the cases where we don't know if a lysine could be acetylated and the cases where they are not.

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I got it, thank you for your response.

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Ok I made this into an answer. Could you please accept it as such.

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The question is not quite clear? are you asking for wheat proteins in UniProtKB which contain a lysine amino-acid, where those lysine are known not to be acetylated?

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Yes, that's what I meant.

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4 weeks ago
me ▴ 760

You can't. The data does not exist. UniProt only annotates where a lysine is know to be acetylated. There is no way that UniProt can know which lysine's are never acetylated. (Very hard to prove a negative, so nothing in the literature allows UniProt curators to state this). In other words we can't distinguish between the cases where we don't know if a lysine could be acetylated and the cases where they are not.

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