Active Site Of Enzymes
Hi all,
I have a list of UniprotACs corresponding to enzymes (no structure available for most of them). I'd like to identify residues in the active site. For now, I am looking at InterPro and extracting regions with the tag "site". Is this good practice? Any better option?
Many thanks in advance,
Miquel
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miquelduranfrigola
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1 answer
In a UniProt record, the key that you are looking for in the feature table is ACT_SITE. For example in P00720 (T4 lysozyme):
FT ACT_SITE 11 11 Proton donor.
FT ACT_SITE 20 20 Nucleophile.
So you could grep for that, or parse the record with the parsing library of your choice.
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If the list is small, you can do homology modeling and look at cavities + key residues. (or) atleast for few you can do a sanity check to see if the regions you had extracted resembles an active site in a model.