Pro-peptide display

[ValWood]

I was looking at this with @Antonialock, and we both thought the display is a bit confusing for propeptide.

The "blocks" should be part of the protein remaining (maybe the excised parts could be a ------- line?)

v

can explain if not clear

[kimrutherford]

The "blocks" should be part of the protein remaining

I'm confused by that. Aren't the purple blocks for pro-peptides already showing the bits that remain?

[ValWood]

no, unintuitively, they are the deleted part. This is a tine pheromone, only 9 amino acids!

[Antonialock]

The label is ‘propeptide’ so it makes sense that the propeptide portion is highlighted. It is just a bit unintuitive showing it like a box as at least to me that implies the coding region, not what’s cut out…

[ValWood]

Of course, yes, the propeptide is the label. maybe we don't highlight the protein at all, but represent the propeptide as a dashed line?

[Antonialock]

Yes I think that would probably look more intuitive...?

[Antonialock]

this is how it looks in the uniprot viewer. I think the graphic is hard to look at since there is no legend, but is clear when "interacting" with it (clicking on regions to highlight them).

[kimrutherford]

We currently display the pro-peptide in a similar way to UniProt. Maybe we should keep it consistent?

If there is a chain annotated makes the pro-peptide annotation clear I think?

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https://www.uniprot.org/uniprotkb/O13351/feature-viewer

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https://dev.pombase.org/gene_protein_features/SPBC365.06

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Here's how it looks if the pro-peptide is shown as the remaining residues:

[ValWood]

OK , agreed!

[kimrutherford]

Can we close this?