Biochemistry 3070 Lab Report: Introduction to DNA and Protein Databases
Page 1
REPORT - Introduction to DNA and Protein Electronic Databases
Name:
Date of Lab:
1. List the Nucleotide accession numbers for the four DNA sequences identified in the Journal articles
in numeric and alphabetic order
1.
2.
3.
4.
2. Give the official name of the enzyme and source of DNA information (species and tissue). Please
match the line number with the line number in part one which contains the accession number in
part one
1.
2.
3.
4.
3. Give the Swiss-Prot accession numbers that correspond to the Nucleotide sequences. Again, please
match the line number with the line number in part one (above).
1.
2.
3.
4.
Biochemistry 3070 Lab Report: Introduction to DNA and Protein Databases
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4. Give the calculated MW and pI of each of the 4 proteins (do not include any signal sequence). Again
please match the corresponding numbers with the correct accession numbers as written above.
1. MW
pI
2. MW
pI
3. MW
pI
4. MW
pI
5. What is the % composition Methionine and Lysine in carnitine palmitoyltransferase II from rat liver?
6. What is the sequence of the endo-Lys-C peptide fragment from pigeon liver CAT starting at amino
acid position 365?
7. What is the sequence of the CNBr peptide fragment from rat liver CPT-II starting at amino acid
position 533?
8. What is the sequence of the trypsin peptide fragment from human CPT-II starting at amino acid
position 275?
9. Include a copy of the Kyte/Doolittle hydrophobicity chart for the same protein you chose for the
digestion pattern from Part F.
Biochemistry 3070 Lab Report: Introduction to DNA and Protein Databases
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10. Write down the peptide sequence (one given to you), the unknown number and the name of the
unknown protein. If your search finds a protein family, include all accession numbers from each
protein
Unknown number
Peptide sequence
Name of unknown Protein
Swiss-Prot accession number
QUESTIONS:
1. What was the most likely treatment for digestion of the unknown protein, why?
2. What piece of information would make the initial Nucleotide search much easier?
3. What practical information does the Kyte/Doolittle plot give a researcher?
4. In some cases when a single peptide is used to search against the database, several proteins are
found to correspond to the sequence. Why?