Biochemistry 201

Advanced Molecular Biology

March 6, 2000

Determining Function from Sequence

Doug Brutlag

Homework:

Find a single protein of interest to you. This may be a protein from your own research or research group, or one you choose from Entrez or Swiss-Prot databases.

Examine the protein for functional attibutes by:

Homology
BLASTP

PSI-BLAST

Smith & Waterman

Motifs

Prosite-Scan

eMOTIF-Search

eMATRIX-Search

BLOCKS-Searcher

For each result, comment on what functions you discover in your protein sequence. State whether each findings is significant:

1) statistically based on expectation frequencies or scores

2) biologically based on your knowledge of the function of the protein and its metabolism