Convention for protein-level changes
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2.9 years ago
ognjen011 ▴ 220

I have come to understand that G37 or Gly37 are changes to aminoacid Gly at position 37.

I ran into this paper: https://www.nature.com/articles/s41467-017-00257-5

What is PheSerTyr13?

protein nomenclature • 514 views
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From table 4 legend in paper you linked:

We identify independent associations for each category of variants: SNP, HLA (classical allele) and AA (HLA amino acid). For amino acid polymorphism, the label specifies the amino acid and the position. For example, ‘HLA-A Val95’ means amino acid Val at position 95 of the HLA-A protein

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Yes, but the specific multiple-amino-acids-in-a-position case is not addressed in that, no?

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2.9 years ago
Ram 34k

These invented notations rarely deserve to be called nomenclatures. You'd have better luck emailing the authors, as anything we might deduce would be accurate guesswork at best and a shot in the dark at worst.

My guess: it's a locus where the amino acid could be a Phe, a Ser or a Tyr. As in, it's a multiallelic nucleotide variant at the second base in a T [T/C/A] Y codon, with one of 3 possible nucleotides: T, C and A. TTY gives Phe, TCY gives Ser and TAY gives Tyr.

Y denotes pYrimidine (T or C)

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