possible M-P pyrimidine dimer repair

geneontology / go-ontology

Source ontology files for the Gene Ontology

http://geneontology.org/page/download-ontology

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possible M-P pyrimidine dimer repair #11283

Closed gocentral closed 9 years ago

gocentral commented 10 years ago

pyrimidine dimer repair

is defined "The repair of UV-induced T-T, C-T and C-C dimers." [ISBN:0815316194]

doesn't this make it is_a GO:0006298 - mismatch repair?

Reported by: ValWood

Original Ticket: geneontology/ontology-requests/11104

gocentral commented 10 years ago

Not necessarily -- pyrimidine dimers form between consecutive base residues on one strand, regardless of whether the other strand has the "correct" base.

Original comment by: mah11

gocentral commented 10 years ago

status: open --> closed-rejected

Original comment by: ValWood

gocentral commented 10 years ago

Of course...I'll take a closer look at the annotation instead.....

Original comment by: ValWood

gocentral commented 10 years ago

... but I think those are repaired by the NER pathway... see http://en.wikipedia.org/wiki/Pyrimidine_dimer Which means there are two ways of annotating the same observation ?

Original comment by: pgaudet

gocentral commented 10 years ago

That would make sense I think based on this http://www.pombase.org/spombe/result/SPBC19C7.09c#go I was trying to consolidate the annotation as it seems that we are describing the same process in multiple ways......

Original comment by: ValWood

gocentral commented 10 years ago

OK got it so it looks as though this has a role in both UV-damage induced nucleotide excision repair (of pyrimidine dimers) and mismatch repair

If all pyrimidine dimers repaired by NER then maybe and it does have the exact synonym: exact pyrimidine-dimer repair, DNA damage excision

thenGO:0006289 and GO:0006290 pyrimidine dimer repair

should merge?

Original comment by: ValWood

gocentral commented 10 years ago

status: closed-rejected --> open

Original comment by: ValWood

gocentral commented 10 years ago

although there is also GO:0000720 pyrimidine dimer repair by nucleotide-excision repair

the only other children are describing parts of the repair process (recognition, unwinding,removal, gap filling ) rather than other 'types' of repair

Original comment by: ValWood

gocentral commented 10 years ago

status: open --> closed-rejected
assigned_to: David Hill

Original comment by: ukemi

gocentral commented 10 years ago

Not all pyrimidine dimers are repaired by nucleotide excision repair. There is also a type of repair called photoreactivation where an enzyme just cleaves the dimers. So this link shouldn't be made.

-D

Original comment by: ukemi