I'm not sure how I missed these, but the following are cases where the amino acid specified in Reactome differs from that given by UniProtKB or possibly are cases where the PSI-MOD identifier is incorrect for the amino acid.
1) Reactome identifiers where Q9UM73 is the reference sequence. All of these incorrectly give position 1358 as a tyrosine (it's actually valine). Looking at the sequence through its whole history, there was never a tyrosine at that position. There is, however, a tyrosine at position 1359. Possibly a typo? The list of impacted identifiers is:
2) Reactome identifiers where P28482 is the reference sequence. In all cases there is a phosphorylated threonine given at position 185, but the PSI-MOD identifier is given as MOD:00048; the correct PSI-MOD for these should be MOD:00047. Like for the first case, there was no time in the history of the sequence where that position was actually a tyrosine (which, if it was, it would make the PSI-MOD correct). I think there was just a typo for the PSI-MOD identifier:
3) R-HSA-179868. This uses P00533 as a reference, and indicates there's a phosphorylated tyrosine at position 1101. The actual amino acid there is proline (and always has been). I don't see a tyrosine nearby, but I note that the displayName indicates a different set of positions. Not sure what to make of it.
4) R-HSA-8878063. This uses Q01196 as a reference, indicating there's a phosphorylated serine at position 273. That position is actually a threonine.
5) R-HSA-1295590. This uses O43597 as its reference, indicating a phosphoserine at position 111. That position is actually an isoleucine, but it is flanked on either side by serines. Perhaps a typo?
I'm not sure how I missed these, but the following are cases where the amino acid specified in Reactome differs from that given by UniProtKB or possibly are cases where the PSI-MOD identifier is incorrect for the amino acid.
1) Reactome identifiers where Q9UM73 is the reference sequence. All of these incorrectly give position 1358 as a tyrosine (it's actually valine). Looking at the sequence through its whole history, there was never a tyrosine at that position. There is, however, a tyrosine at position 1359. Possibly a typo? The list of impacted identifiers is:
2) Reactome identifiers where P28482 is the reference sequence. In all cases there is a phosphorylated threonine given at position 185, but the PSI-MOD identifier is given as MOD:00048; the correct PSI-MOD for these should be MOD:00047. Like for the first case, there was no time in the history of the sequence where that position was actually a tyrosine (which, if it was, it would make the PSI-MOD correct). I think there was just a typo for the PSI-MOD identifier:
3) R-HSA-179868. This uses P00533 as a reference, and indicates there's a phosphorylated tyrosine at position 1101. The actual amino acid there is proline (and always has been). I don't see a tyrosine nearby, but I note that the displayName indicates a different set of positions. Not sure what to make of it.
4) R-HSA-8878063. This uses Q01196 as a reference, indicating there's a phosphorylated serine at position 273. That position is actually a threonine.
5) R-HSA-1295590. This uses O43597 as its reference, indicating a phosphoserine at position 111. That position is actually an isoleucine, but it is flanked on either side by serines. Perhaps a typo?