Hi!
I have a file with a lot of eC_numbers. I would like to convert these numbers, so they represent KEGG and metacyc IDs instead. I need file where I can see what eC_numbers represent which KEGG/metacyc IDs. I also need a database of what the KEGG/metacyc IDs represent, enzyme-wise.
I can't find a proper file on their websites.
Can anyone help me out?
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allerdrengen55
Use Uniprot. It collates all the info you need. But it's organism dependant. So hopefully your org of interest is in the db (it usually is). For metacyc, this falls under biocyc. For example I work on Hi:
https://www.uniprot.org/uniprot/?query=haemophilus+influenzae&sort=score
Thanks, I'll give it a shot. Though, I'm working with metagenomic data, so I have thousands of different organisms in my sample, and can't really filter any out.
I believe they have an API you could access. Or possibly you could download an instance of the db: https://www.uniprot.org/downloads
IMO this might be the best way forward.
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EC and ko's are not 1:1 mapping
So there's no point in trying to convert EC to other IDs ?
No. You can try eggNOG-mapper to get KOs. Also what's the organism?
It's a metagenomic sample.