Obsoletion request: GO:0101030 tRNA-guanine transglycosylation

[sjm41]

Please provide as much information as you can:

• GO term ID and Label
  GO:0101030 tRNA-guanine transglycosylation
  The modification of a tRNA anticodon loop by replacing guanine with queuonine. Reaction is tRNA guanine + queuine = tRNA queuine + guanine. PMID:24911101

• Reason for deprecation Put an x in the appropriate box:

• The reason for obsoletion is that this term represents a molecular function.

• "Replace by" term (ID and label)

• "Consider" term(s) (ID and label)
  MF: GO:0008479 tRNA-guanosine(34) queuine transglycosylase activity
  Catalysis of the reaction: guanosine34 in tRNA + queuine = guanine + queuosine34 in tRNA.

BP: GO:0002099 tRNA wobble guanine modification
The process in which a guanine in t position 34 of a tRNA is post-transcriptionally modified.

• Are there annotations to this term?
  How many EXP: 14

• Are there mappings and cross references to this term? (InterPro, Keywords; check QuickGO cross-references section)
  IPR004803

• Is this term in a subset? (check the AmiGO page for that term)
  No

• Any other information
  I think we need to retain one BP for this process (i.e. GO:0002099 tRNA wobble guanine modification) as the process appears to be multi-step in bacteria and archaea (but not eukaryotes.)
  E.g. IPR004803 entry says: In eukaryotes, queuine is directly exchanged into tRNA while in eubacteria, a queuine precursor (preQ1) is incorporated and ultimately modified to queuine. Archaea contain a closely related enzyme [IPR004804] that catalyses a base exchange of guanine for an archaeosine precursor. This precursor is then subsequently converted to the archaeal-specific modified base archaeosine.

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Checklist for ontology editor

Check term usage and metadata in Protégé

• check term usage in the ontology
• check internal mappings: RHEA, EC, MetaCyc
• check subset usage
• check taxon constraints

Check annotations

• create Annotation Review spreadsheet
• • Annotation Review template: https://docs.google.com/spreadsheets/d/1izV3q1jnq_Ybg5MJ53O_b5BCTkGtjl_Fi-cOg3-7eBE/edit#gid=0
• • Instructions: https://wiki.geneontology.org/Annotation_Review_Request
• create annotation review ticket: https://github.com/geneontology/go-annotation/issues/new?assignees=&labels=annotation+review&template=annotation-review-for-obsoletion.md&title=Review+annotations+to+%5BINSERT+GO+TERM%5D
• find external mappings (via IEAS), include in obsoletion notice
• tag curators in Annotation Review ticket. Responsible annotator for each group: https://github.com/geneontology/go-site/blob/master/metadata/group-contacts.csv

Notification

• create obsoletion announcement
• announce to GO friends ([email protected])
• paste the text in the ontology ticket