Identical structure in different domains.
Dear fellows
I have 8 sequences of proteins based on their functional similarity reported by experimental works. Alignment shows very low identity and similarity in these seq. I want to find out is there any binding site which is same in all these proteins and have the capability to bind with same molecule specifically with water molecule. What I need to know is
- from where should I take 3D models of these proteins (any recommended database)
- how to find the binding sites in these proteins.
- how to superimpose or process these model to get the desired binding site having binding capability for water.
---(Databases and tools necessary to do this task)
Further suggestions will be highly appreciated.
Thank you.
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