User:Stephen Mills/Peptide tutorial 1
From Proteopedia
(→Dipeptides) |
(→Dipeptides) |
||
| Line 234: | Line 234: | ||
Distinguish which end is the amino terminus and which amino acid is at the carboxyl terminus? | Distinguish which end is the amino terminus and which amino acid is at the carboxyl terminus? | ||
| + | |||
| + | Which amino acid is at the N terminus? Which is at the C terminus? | ||
<Structure load='ArgTyr.pdb' size='500' frame='true' align='left' caption='' scene='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyr/1' /> | <Structure load='ArgTyr.pdb' size='500' frame='true' align='left' caption='' scene='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyr/1' /> | ||
| + | Click <scene name='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyrtermini/1'>here</scene> to label the N and C termini. | ||
| + | Click <scene name='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyraalabels/1'>here</scene> to label the two amino acids. | ||
| + | Scroll down for more. | ||
| Line 249: | Line 254: | ||
| - | <Structure load='ArgTyr.pdb' size='500' frame='true' align='left' caption='' scene='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyr/1' /> | ||
| - | Click here to label the N and C termini. | ||
| - | + | <Structure load='ArgTyr.pdb' size='500' frame='true' align='left' caption='' scene='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyr/1' /> | |
| Line 263: | Line 266: | ||
Identify the atoms involved in the peptide bond between Tyrosine and Arginine | Identify the atoms involved in the peptide bond between Tyrosine and Arginine | ||
| - | Click here to change the color of those atoms to white. | + | Click <scene name='User:Stephen_Mills/Sandbox_2_Peptide_tutorial/Argtyramide/1'>here</scene> to change the color of those atoms to white. |
Revision as of 02:15, 25 July 2011
Contents |
Biochemistry Tutorial #1 - Peptides
The alpha amino acids polymerize, or bond, through the elimination of a water molecule. Polymers composed of two amino acid residues are known as dipeptides. Longer polymers are called oligopeptides (up to around 20 amino acids) or polypeptides (> 20 amino acids). Proteins can contain any number of amino acids linked together but each has a unique length (number of amino acids) and sequence (the identity and order of amino acids in the polymer).
In this excercise, you will identify amino acids, the amino and carboxy groups involved in the peptide bond, look at peptide bonds and oligopeptide structure and finally also examine disulfide bonds.
Which amino acid is this?
|
Scroll down when you know what it is.
You can rotate the amino acid by holding down the right mouse button and dragging.
|
This is Arginine (Arg, R) and amino acid with a positively charged side chain.
Identify the α-amino and α-carboxy groups involved in peptide bond formation.
Click to see the N and C groups labelled.
|
Name the new amino acid.
Scroll down to get the answer
|
This is Tyrosine (Tyr, Y), an aromatic amino acid
Again, identify the amino and carboxy groups involved in peptide bond formation.
Click to have the N and C groups labeled.
Alpha Carbons
Now here are both structures. Identify the α-carbons on each amino acid.
|
Click to label the α-carbon on Arginine
|
Click to label the α-carbon on Tyrosine
Dipeptides
Identify the main chain groups and side chains of this dipeptide.
Distinguish which end is the amino terminus and which amino acid is at the carboxyl terminus?
Which amino acid is at the N terminus? Which is at the C terminus?
|
Click to label the N and C termini.
Click to label the two amino acids.
Scroll down for more.
|
Notice that the Arginine is on the amino terminal end and the Tyrosine is on the carboxy terminal end.
The short way to name this dipeptide is: Arg-Tyr or RY
Identify the atoms involved in the peptide bond between Tyrosine and Arginine
Click to change the color of those atoms to white.
