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geneontology / go-ontology

Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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remove part of between GO:0008023 transcription elongation factor complex and nucleoplasm #27711

Open cmungall opened 3 months ago

cmungall commented 3 months ago

GO constrains GO:0008023 transcription elongation factor complex to eukaryotes via its location in the nucleus

image

NusG in bacteria is localized to the TEFC (https://amigo.geneontology.org/amigo/gene_product/UniProtKB:P0AFG0) but obviously bacteria like a nucleus.

I think in general placing contingent knowledge on high level classes such as functionally defined complexes is an antipattern.

pgaudet commented 3 months ago

UniProt states that this is a monomer:

https://www.uniprot.org/uniprotkb/P0AFG0/entry#family_and_domains

Monomer. Interacts with the transcription termination factor Rho and with RNAP. One NusG monomer forms a stable complex with a Rho hexamer. Binds directly, but weakly, to the core enzyme of RNAP. Also interacts with RpsJ (NusE). The rRNA transcription and antitermination complex (rrnTAC) consists of RNAP, NusA, NusB, NusE (rpsJ), NusG, SubB, ribosomal protein S4, DNA and precursor rRNA; S4 is more flexible than other subunits (PubMed:32871103).

So, it seems correct to have this taxon-restriction.

Pascale