| What UniProt sequence did you choose to use for this lab's
secondary structure predictions, and what was its FastX expectation value
from Lab #5? |
|
| 1) What was the isoelectric point of that protein? |
|
| 2) Were there any potential, especially striking, amphiphilic alpha
helices in your protein, as identified by Moment? Where were they?
Did they correspond to the regions identified by PepPlot? |
|
| 3) Were there any regions in your protein that were particularly hydrophobic?
Where were they? |
|
| 4) Which regions of your protein looked particularly antigenic based on its
hydrophilicity and its predicted flexibility and surface exposure? |
|
| 5) Where are the actual helices and strands on your sequence, as inferred
by your alignment against a solved structure? Use positions that do NOT
include gaps, i.e. not the alignment column, the actual sequence site. |
|
| 6) Were any of these inferred helices particularly amphiphilic as
visualized by HelicalWheel? Did any of these regions correspond
to regions identified through hydrophobic moment analyses?
Which ones? |
|
| 7) Tell me about your PredictProtein experience. Did you get the server to
accept your multiple sequence alignment? What secondary structure elements
were predicted in your sequence and where were they? Do these correspond
to your inferred placement based on your alignment? |
|
