Hello,
I have a huge list of enzymes for predicted metagenome.
Is there any way to cluster those enzymes into different functional categories?
Thanks in advance.
2 answers
Your table already has functional categories in the first column. Those are EC numbers corresponding to major chemical reactions performed by enzymes. It is all explained at BRENDA database:
https://www.brenda-enzymes.org/
Briefly, if two enzymes have the first 3 numbers identical (say, EC 6.1.1), they in most cases perform the same reaction but on a different substrate. If they are the same only on the first two numbers, they probably perform the same reaction and on the same type of bond, but likely on a different set of compounds. Below is a link to ligases where you can see the hierarchy:
https://www.brenda-enzymes.org/enzyme.php?ecno=6.1.1.1
Anyway, sorting your table by the first column will give you a good clustering by function.
Thank you so much for explaining this so nicely @mensur. Have a nice day.
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