U6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase activity

[sylvainpoux]

Hi,

this paper shows a new methyltransferase activity both in human and pombe. PMID:28525753

Would it be possible to create 2 GO terms? One for the process and one for the function?

GO:xxxxxxx U6 snRNA (adenine-(43)-N(6))-methyltransferase activity category: Function Child of GO:0008173 RNA methyltransferase activity Term information: Catalysis of the reaction: S-adenosyl-L-methionine + adenine(43) in U6 snRNA = S-adenosyl-L-homocysteine + N(6)-methyladenine(43) in U6 snRNA

GO:xxxxxxx snRNA N6-methylation category: Process Child of GO:0040031 snRNA modification Term information: The posttranscriptional N6-methylation to the adenine in position 43 of U6 snRNAs

Thanks

Sylvain

[krchristie]

Hi Sylvain,

I've put in the MF term as you've requested: (also https://github.com/geneontology/go-ontology/pull/13586/files)

id: GO:0120048 name: U6 snRNA (adenine-(43)-N(6))-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + adenine(43) in U6 snRNA = S-adenosyl-L-homocysteine + N(6)-methyladenine(43) in U6 snRNA" [PMID:28525753] is_a: GO:0008173 ! RNA methyltransferase activity

However, I don't want to put a definition that is highly specific to a designated position in a specific substrate snRNA on a term with the general name 'snRNA N6-methylation' in case any other N6-methylation in another position of this or another snRNA. In addition, there is a lot of reluctance to make process terms that are essentially identical to function terms.

I do see a need to have a new process term under 'snRNA modification' to indicate a more specific type of modification. Based on similar terms in the 'rRNA modification' branch, I thought it should be named 'snRNA (adenine-N6)-methylation'. In the absence of any other kind of 'snRNA base methylation', I don't see a need to create a term of that name parallel to the one for 'rRNA base methylation'. So, I've created this term:

id: GO:0120049 name: snRNA (adenine-N6)-methylation namespace: biological_process def: "The posttranscriptional N6-methylation of an adenine residue in an snRNA molecule." [PMID:28525753] is_a: GO:0040031 ! snRNA modification

Do you think this process term will serve your needs?

Thanks,

Karen

[sylvainpoux]

On 03.06.2017 00:02, Karen R Christie wrote:

Hi Sylvain,

I've put in the MF term as you've requested: (also https://github.com/geneontology/go-ontology/pull/13586/files)

id: GO:0120048 name: U6 snRNA (adenine-(43)-N(6))-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + adenine(43) in U6 snRNA = S-adenosyl-L-homocysteine + N(6)-methyladenine(43) in U6 snRNA" [PMID:28525753] is_a: GO:0008173 ! RNA methyltransferase activity

However, I don't want to put a definition that is highly specific to a designated position in a specific substrate snRNA on a term with the general name 'snRNA N6-methylation' in case any other N6-methylation in another position of this or another snRNA. In addition, there is a lot of reluctance to make process terms that are essentially identical to function terms.

I do see a need to have a new process term under 'snRNA modification' to indicate a more specific type of modification. Based on similar terms in the 'rRNA modification' branch, I thought it should be named 'snRNA (adenine-N6)-methylation'. In the absence of any other kind of 'snRNA base methylation', I don't see a need to create a term of that name parallel to the one for 'rRNA base methylation'. So, I've created this term:

id: GO:0120049 name: snRNA (adenine-N6)-methylation namespace: biological_process def: "The posttranscriptional N6-methylation of an adenine residue in an snRNA molecule." [PMID:28525753] is_a: GO:0040031 ! snRNA modification

Do you think this process term will serve your needs?

Hi Karen,

many thanks, that's perfect

Sylvain

Thanks,

Karen

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[krchristie]

Great. I'm glad that works for you :)