HOMEWORK#7

Sequence analysis / model building

• due on 12/31/1997

• David Liu, a student in the department of Lfe Sciences, got the following mRNA sequence from a rat liver cDNA library.(delete DNA sequence)

Unfortunately, he doesn't know how to use the sequence analysis tools availabled in the internet since he did not take Bioinformatics before. Could you help him to do the following analysis?
• (1) Find its corresponding polypeptide sequence (DNA -> Protein translation).
• (2) Identify this protein. Is it a new protein? What kind of rat is this protein belong to? (China, Noway, German.....)
• (3) Report the total number of negatively charged residues and positively charged residues.
• (4) Draw the hydrophobicity map for this protein using Eisenberg hydrophobicity scale with window size 7. The relative weight of the window edges compared to the window center should set to 40%.
• (5) Please help him to use Prosite scanning tool to find out possible functions or pattern of this protein.
• (6) Color the protein by the hydrophobicity of the amino acids.