NTR: RNA secondary structure unwinding

[gocentral]

name: RNA secondary structure unwinding

name space: biological_process

Def: "The process by which a secondary structure of RNA are broken or 'melted'." [PMID: 17169986]

is_a GO:0016070 ! RNA metabolic process

Reported by: donghui

Original Ticket: "geneontology/ontology-requests/4649":https://sourceforge.net/p/geneontology/ontology-requests/4649

[gocentral]

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Should this term be a child of RNA processing or RNA metabolic process?

rama

Original comment by: rbalakri

[gocentral]

Logged In: YES user_id=1561996 Originator: YES

"Should this term be a child of RNA processing or RNA metabolic process?"

- 'RNA metabolic process' is the suggested parent term.

- 'RNA processing' is defined as 'Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules'. It implies that RNA processing occurs in the 'maturation' process. The proposed term is not part of the 'maturation' process. Therefore, 'RNA metabolic process' is probably better as the parent term.

Original comment by: donghui

[gocentral]

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Ha! I see your point.

rama

Original comment by: rbalakri

[gocentral]

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It seems to me that even "RNA metabolic process" might be too specific, since the def:

Definition: The chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.

seems to be specific to the "chemical reactions and pathways involving RNA", which would imply to me the pathways involved in making or degrading RNA. However, it seems to me that unwinding RNA secondary structures might also play a role in the function of some RNAs, i.e. you might unwind an RNA secondary structure to make a conformational change in a complex without metabolising the RNA.

Just throwing that idea out there, but maybe there's a higher level parent to consider?

-Karen

Original comment by: krchristie

[gocentral]

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I looked at the definition of 'metabolic process' again:

"Processes that cause many of the chemical changes in living organisms, including anabolism and catabolism. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation."

It seems that 'metabolic process' is not limited to 'making/degrading' molecules (note the word 'transform'), also include modification to a molecule?

If we look at similar terms involving DNA, 'DNA duplex unwinding' is_a 'DNA geometric change', which in turn is a child of 'DNA metabolic process'. Another example is 'protein folding' is_a 'cellular protein metabolic process'.

Original comment by: donghui

[gocentral]

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sounds good then, thanks for checking.

-Karen

Original comment by: krchristie

[gocentral]

Logged In: YES user_id=1561996 Originator: YES

added GO:0010501

Original comment by: donghui

[gocentral]

• status: open --> closed-accepted

Original comment by: donghui