1) Blast the full sequence of Y33K_HUMAN against Swissprot
- What are the positive matches?
- Do you detect a potential domain?
- What happens if you remove the filter (uncheck BLAST filter button)?
2) Select the matching sequences and create a multiple fasta format file by cut&paste
then perform a multiple alignment using ClustalW (or Emma on command-line)
- How many conserved residues do you see (count the stars)?
3) Create a simple PROSITE pattern and search (or here or fuzzpro on command-line) against Swissprot
- Do you detect more proteins?
- Why?
4) Do a PSI-BLAST (or here) against SwissProt with the first 60 residues of Y33K_HUMAN
- Iterate 3-4 times by selecting potential matches
- Do you detect more proteins?
- Why?
- What is the conserved domain?