Im currently trying to find the binding domain of 2 different proteins but i have no idea how to find them? im completely lost on how its possible to do this ive tried googling but to no avail any help would be appreciated!!
Try using Google's Alphafold2 to predict the 3d shape of your proteins. with those you can then try doing docking simulations.
DNA binding domain, ligand binding or protein binding domain? If it is from human, you can check the UniProt web that give you an idea of various predicted domains in your proteins.
If is not from human, protein blast your proteins and see the similarity with other proteins, and by looking at their structure of UniProt info, you can get an idea.
You can visit this site:
Services and tools developed in the Yang Zhang Lab (zhanggroup.org)
it has a lot more online servers that work on protein sequences.
And one more useful resource:
InterPro (ebi.ac.uk)
Good luck.
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