MP GO:0031362 anchored component of external side of plasma membrane

[ValWood]

our annotations to GO:0031362 anchored component of external side of plasma membrane seem to have lost their "cell surface" annotation over the weekend. This means the "cell surface" parent must have been removed?

was that intended? I can't see exactly what was changes as this parent is still visible in Quickgo.

val

[pgaudet]

Hi Val,

The parent is there (part_of)

Are we seeing the same ? (The relation seems wrong to the ontology developers, however)

Thanks, Pascale

[ValWood]

It's wierd- I have 10 genes annotated to "anchored component of external side of plasma membrane" which are no longer annotated to "cell surface" (they were annotated to cell surface last week, because I compared our dev version to live on Sun. Now both dev and live have the lower number)

[ValWood]

The relation seems wrong to the ontology developers, however

we are using the term "cell surface" in accordance with this comment

Comments Note that this term is intended to annotate gene products that are attached (integrated or loosely bound) to the plasma membrane or cell wall.

I'm happy for any of this to change, but everyone calls these "tail anchored" proteins (both GPI or membrane anchored) "cell surface proteins. So it seems like the correct term.

Basically we need a term to represent everything which is outside the cell (cell wall or plasma membrane attached). It's a largely biologically cohesive module (with some sub divisions) .... I'm happy to use any other term which fits this though....

[ValWood]

i.e the comment on "call surface" make it seem like GO:0031362 anchored component of external side of plasma membrane should be part of cell surface)

[ukemi]

What about cells with cell walls?

[ValWood]

Fungi have cell walls- but in fungi "cell surface" is used for anything outside of the plasma membrane...AFAIK

cell surface =orange below

[ValWood]

for us anything outside of the cell, but attached, is on the surface....

[pgaudet]

Hi @ValWood Is the parent still missing ?

[ValWood]

no it they came back;)