| 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 HMoment?
Where were they? Or, if your protein doesn't have any alpha
helices, were any of its beta sheets amphiphilic, and where were they?
|
|
| 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 hydrophobicity and predicted
surface exposure profile? |
|
| 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 (or sheets) particularly
amphiphilic as visualized by PepWheel?
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? |
|
