4. Knowing this pattern, and basic informati on about which AA are compatible wi

Question

4. Knowing this pattern, and basic informati on about which AA are compatible with alpha helices (you don't need to worry about anything else), design a 12 amino acid peptide that might form a coiled-coil. Hint: you may want to use one of the ends on "helical wheel" projections that you can find online. Give the sequence only (you don't need to write out the chemical structure; amino acid names or abbreviations are fine) 5. Your book discusses an additional factor that influences the stability of alpha helices -the hydrogen bonds between the atoms of the backbone, together with the charged groups at the amino terminus and carboxy terminus, create an intrinsic dipole (a dipole is something that is electrically neutral but is polarized) Now that you know this, what kind of amino acid do you think you should put at the amino terminus of the peptide you designed in Problem 4 to make it as stable as possible? 6. Do you think that the peptide you designed actually WOULD form a coiled- coil? Why or why not? What else might you need to take into consideration in order to design a coiled-coil with a high probability of success?

Explanation / Answer

6. yes the peptide we design would form a coiled-coil for designing a coiled-coil consideration should be those which link protein sequence and structure.

to place alternately three hydrophobic amino acids and four residues apart to direct folding next is the assembly of amphipathic alpha-helices and for more specificity, the second hydrophobic amino acid will be Leu for guiding the assembly of dimers

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