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ebi-chebi / ChEBI

Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds.
https://www.ebi.ac.uk/chebi
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CHEBI peptides #2442

Open muthuvenkat opened 12 years ago

muthuvenkat commented 12 years ago

Continuing with our GO_CHEBI cross-products, I have the following peptides... do these come under ChEBI's domain?

  1. enniatin A class of organic fungal depsipeptides.

  2. beta-amyloid A 36–43aa peptide processed from a precursor protein.

  3. beta-endorphin A 31 aa opoid peptide processed from a precursor protein.

Thanks, Becky

Reported by: *anonymous

muthuvenkat commented 12 years ago

Another one: neuromedin U - a conserved 25aa neurotransmitter (http://en.wikipedia.org/wiki/Neuromedin\_U)

Jane

Original comment by: jl242

muthuvenkat commented 12 years ago

Yes to everything! Comments:

  1. enniatin OK as a class. Can we have some examples to insert as children?

  2. beta-amyloid This was the subject of a submission in 2009, but at that time we considered to be outside the scope of ChEBI. However, since that time we have revised our criteria for inclusion in ChEBI, so as long as the invididual members of this class do not exceed 50 aa, then we will consider them as small molecules and include them in ChEBI. I see that KEGG has two members of this class: Beta-amyloid protein 40 (C16514) and Beta-amyloid protein 42 (C16515), so presumably we could include these as well in ChEBI children of the parent term?

  3. beta-endorphin KEGG shows the aa sequence in C02210. Wikipedia also has a rather nice drawing of the structure (although pity it's only an image and not a molfile for us to copy).

  4. neuromedin U You specify the 25aa isoform (presumably this is called NMU-25). Could you please let us have the aa sequence as I see that the Wiki entry only gives the sequence for the 23aa isoform? Will you want any of the other isoforms as well?

Please submit these via the submission tool, listing aa sequences where appropriate [but don't bother trying to draw the structures - this is normally quite tricky but you can safely leave it in the hands of the professionals ;-) ]

Cheers, Marcus

Original comment by: mennis

muthuvenkat commented 12 years ago

Hi

Your submissions for the enniatins and beta-amyloids were curated by Steve last week and these will appear in the June 1st release. I've now also curated the existing but unchecked entry for beta-endorphin but this missed our cut-off for the June release and so will become public the following month. Beta-endorphin has ChEBI ID CHEBI:10415.

I'm still waiting for a reply to my question about Jane's request for neuromedin U.

Marcus

Original comment by: mennis

muthuvenkat commented 12 years ago

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Original comment by: nobody