Restructure GO:0022857 transmembrane transporter activity branch

[hattrill]

The current structure of the GO:0022857 transmembrane transporter activity branch is not working very well for classifying TMTs. This is leading to some confusion over primary, secondary, faciltated diffusion and passive transport. See discussion on https://github.com/geneontology/go-ontology/issues/27340

The main framework currently this:

transmembrane transporter activity
    |__active transmembrane transporter activity
        |__primary active transmembrane transporter activity
        |__secondary active transmembrane transporter activity
            |__antiporter activity
            |__symporter activity
            |__uniporter activity
    |__passive transmembrane transporter activity
        |__channel activity

We propose that this structure, which is more inline with the current TC system would be less confusing:

transmembrane transporter activity
    |__primary active transmembrane transporter activity
    |__transmembrane carrier activity
        |__antiporter activity
        |__symporter activity
        |__uniporter activity
    |__channel activity
    |_group translocator activity 

The restructure would involve:

transmembrane transporter activity
    |__active transmembrane transporter activity **OBSOLETE** as unhelpful grouping term
        |__primary active transmembrane transporter activity
        |__secondary active transmembrane transporter activity **RENAME** to 'transmembrane carrier activity'
            |__antiporter activity
            |__symporter activity
            |__uniporter activity
    |__passive transmembrane transporter activity **OBSOLETE** as a single parent 'branch'
        |__channel activity
    |_group translocator activity **NEW**

[hattrill]

TASKS

• [x] Review direct children of GO:0022804 active transmembrane transporter activity
• [ ] obsolete GO:0022804 active transmembrane transporter activity
• [x] NTR: group translocator activity
• [ ] Review children of GO:001529 secondary active transmembrane transporter activity
• [ ] Rename and redefine GO:001529 secondary active transmembrane transporter activity
• [ ] obsolete GO:0022803 passive transmembrane transporter activity

[hattrill]

GO:0022804 active transmembrane transporter activity

• [ ] obsolete as confusing/inaccurate

  -is_a GO:0046715 active borate transmembrane transporter activity

• [x] made tickets to obsolete and new terms for channels & reannotation

  -is_a GO:0022853 active monoatomic ion transmembrane transporter activity -All child terms are either GO:0015503 glutathione-regulated potassium exporter activity and GO:0015341 zinc efflux active transmembrane transporter activity -no direct annotations

• [x] tickets made for new is_a rels for GO:0015503 & GO:0015341

• [ ] obsolete

  -is_a GO:0008504 monoamine transmembrane transporter activity -has direct EXP annotations, all to SLCs - so could either leave, move under 'carrier' and/or rename to monoamine transmembrane carrier activity

• [ ] action TBD

  -is_a GO:0015399 primary active transmembrane transporter activity -fine. Defintion includes "Primary energy sources known to be coupled to transport are chemical such as ATP hydrolysis, redox energy and photon energy"

• [x] review GO:0015454 light-driven active monoatomic ion transmembrane transporter activity to see if it should be housed under this parent

  -is_a GO:0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity

• [x] ticket to move under group translocator activity

  -is_a GO:0090563 protein-phosphocysteine-sugar phosphotransferase activity

• [x] ticket to move under group translocator activity

  -is_a GO:0015291 secondary active transmembrane transporter activity

• [ ] review children

• [ ] rename to transmembrane carrier activity

  -is_a GO:0015576 sorbitol transmembrane transporter activity leave this floating, similar to others like this e.g. mannitol TMT, so when parent gone will not have active transport grouping