Handout 4 BCMB3100 Chapter 4 Chapter 4 (Cont)10) Why are the six atoms of the peptide group planar? What are the six atoms? Be able to draw the plane. 11) The protein-folding problem (for soluble proteins) is based on four basic principles (assumptions). What are they? 11) What problem in protein folding did Pauling’s Alpha helix and Beta-sheets correctly address years before a protein structure was solved. Note that this is the defining characteristic of Pauling’s Structural Elements. 12) What is Secondary Structure? (ANSWER: A structural element that allows a peptide to fold and satisfy its main-chain hydrogen bonding needs in a regular, repeating and predictable pattern). 13) Know that the alpha-helix is right handed. Know that the pitch of the alpha helix has 3.6 residues per turn, and that each carbonyl oxygen accepts an H-bond from the amide of the n+4 residue. 14) What is an amphipathic helix? Where are they usually found in proteins? Use the helical wheel to identify an amphipathic helix.
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