ebi-chebi / ChEBI

Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds.
https://www.ebi.ac.uk/chebi
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Rename serine family amino acid to L-serine family amino acid #4526

Open cmungall opened 1 month ago

cmungall commented 1 month ago

This is implicitly L based on graph:

image

And the definition: "An L-alpha-amino acid which is biosynthesised from 3-phosphoglycerate (i.e. serine, glycine, cysteine and homocysteine). A closed class."

(aside: what is a closed class? I see this on a handful of CHEBI terms but don't know what it means)

I think it's good to have the nomenclature be consistent because it's easy to get confused about whether a term is intentionally chirality agnostic or implicitly chiral (e.g many people use the CHEBI ID for serine when they mean L-serine)

Perhaps the reason this wasn't done because of glycine (achiral):

image

But glycine's position is already awkward if you look two hops up to L-alpha-amino acid