#1721 oxygen radical and radical ion

[Tanya Berardini]

Hi,

In ChEBI, a radical ion is_a radical. We requested that superoxide be is_a oxygen radical. Since superoxide is a radical anion, should it not also be a radical? Comment in GO/ChEBI spreadsheet says, 'This is a radical anion rather than a radical.'

Thanks for the clarification.

Tanya and David.

[Marcus Ennis]

Hi,
Our definition in ChEBI of radical ion follows that given in the IUPAC 'Gold Book', viz. "A radical that carries an electric charge." Hence our inclusion of 'radical ion is_a radical' and 'readical ion is_a ion' relationships. The ChEBI entry for superoxide (CHEBI:18421) has parentage

superoxide (CHEBI:18421) is a diatomic oxygen (CHEBI:33263)
superoxide (CHEBI:18421) is a inorganic radical anion (CHEBI:36876)
superoxide (CHEBI:18421) is a reactive oxygen species (CHEBI:26523)

and includes the branches

CHEBI:26519 radical
>>CHEBI:36875 radical ion
>>>>CHEBI:36873 radical anion
>>>>>>CHEBI:36876 inorganic radical anion
>>>>>>>>CHEBI:18421 superoxide

CHEBI:24870 ion
>>CHEBI:36875 radical ion
>>>>CHEBI:36873 radical anion
>>>>>>CHEBI:36876 inorganic radical anion
>>>>>>>CHEBI:18421 superoxide

by which are inferred

CHEBI:18421 superoxide is_a CHEBI:26519 radical

and

CHEBI:18421 superoxide is_a CHEBI:24870 ion

If I read your request correctly, this is the situation that you desire. OK?

Marcus

[Tanya Berardini]

Sorry, Marcus. This comment made sense at the time I typed it out but now it is just confusing! In any case, it appears that 'superoxide' is currently not is_a 'oxygen radical'.

http://embl-ebi.org/chebi/searchId.do?viewTermLineage=true&chebiId=CHEBI:61073

Should it be? We think, 'Yes.'

Thank you.

Tanya

[Marcus Ennis]

Hi Tanya,
Don't know why this got stuck here in 'Pending' for such a long time. Apologies! I've now added the relationship superoxide (CHEBI:18421) is a oxygen radical (CHEBI:61073).
Hope all is OK with you.
All best,
Marcus

[Tanya Berardini]

Thanks, Marcus.