Proteomics Lab

Question 1

Steps to Generate Short Peptide Sequence

Answer 1

1. Extract Protein from Seawater
2. Using Trypsin to cute Protein into small Peptides
3. Select Peptide with first Mass Spectrometer
4. Fragment Peptide into smaller pieces using energy from collision cell of both Mass Spectrometers
5. Measure Fragmented Peptide with second Mass Spectrometer. (m/z ratio)
6. Generate Theoretical Fragment Spectra through software predictions of parent peptide fragments and of proteins of expected organisms.
7. Compare theoretical spectra to experimental.
8. Match fragment spectra through overlap. (Indicates specific Peptide in sample)
9. Match identified Peptides to protein. (Identify organism and function by similar peptide sequence from database)

Question 2

What does Marine Metaproteomics tell us ?

Answer 2

What marine microorganisms are actually doing.

Question 3

Why are Amino Acids classified by their R Group?

Answer 3

They determine charge and polarity of each amino acid.
The amino acid side chains are responsible for many of the interactions that lead to protein folding and function.