I need to assemble some model seqs of my protein of interest so I have a control to compare to other sequences. I would like to do a nice swath of Eukaryotes and Bacteria (having at least 12 or 13 species of Eukaryotes and 5 or 6 species of Bacteria), as well as having multiple versions of the proteins from each species (i.e. Human Protein_A 1.1, Human Protein_A 1.2, Human Protein_A 2.3, Zebrafish Protein_A 1.1, etc...). SO...I know this is super easy to do with NCBI or UniProt, but my mentor wants me to get the proteins from organism-specific databases. I didn't think this would be a problem until I got about 4 organisms deep.
Human and Mouse and Zebrafish were pretty easy to find, but I'm having so much trouble finding sites that give me AA seqs for my protein (very common protein). Even the yeast genome website, which I was told would be a goldmine, has been useless to me.
Basically, is there an easy way to find organism databases or at least find sequences that link back to an organism database? UniProt kinda does this, but 20hrs of searching over the weekend made me give up on it.