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geneontology / go-annotation

This repository hosts the tracker for issues pertaining to GO annotations.
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IPR004000 structural constituent of cytoskeleton #97

Closed gocentral closed 9 years ago

gocentral commented 19 years ago

unfortunatley these 2 mappings

GO:0005200 structural constituent of cytoskeleton GO:0015629 actin cytoskeleton

are not always true for actin-like proteins (ARPs do not form polymers ....are generally found in large multisubunit complexes and play regulatory roles towards the complex function (some are nuclear and part of histone acetyl transferase omplex or SWI?SNF family ATPaases. This appears to be conserved from yeast to humans. see PMID: 15483052

Reported by: ValWood

Original Ticket: "geneontology/annotation-issues/97":https://sourceforge.net/p/geneontology/annotation-issues/97

gocentral commented 19 years ago

Original comment by: mah11

gocentral commented 19 years ago

Original comment by: mah11

gocentral commented 19 years ago

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I've removed GO:0005200 structural constituent of cytoskeleton - I agree that's wrong. I've left GO:0015629 actin cytoskeleton for now as almost all the entries in Swiss-Prot still have the keyword, even when the function is quite different, and you can see where the cytoskeleton would play a role. For example, the protein in PMID: 15483052 plays a role in chromosone separation, which could easily involve the actin cytoskeleton.

Original comment by: orchard

gocentral commented 19 years ago

Original comment by: orchard

gocentral commented 19 years ago

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yep, makes sense....

Original comment by: ValWood

gocentral commented 19 years ago

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Are you quite sure? Mapping to a GO cellular component term implies that the protein is localized to the component (not just that it may be involved in something to do with the component). The protein described in PMID 15483052 is localized to the nucleus, and the paper does not show any cytoskeletal localization.

(Also, in eukaryotes the microtubule cytoskeleton handles chromosome segregation.)

m

Original comment by: mah11

gocentral commented 19 years ago

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actually Midori I think you are right....in this particular paper it doesn't show any cytoskeletal localization, and the equivalent budding yeast complexes are exclusively nuclear.

Original comment by: ValWood

gocentral commented 19 years ago

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OK, I'll remove the mapping completely. Sandra

Original comment by: orchard