1.

(24 pts)
A. (8 pts). In the genetic code, the triplets coding for Phe are UUU and UUC. Triplets
coding for Leu are UUA and UUG, differing only in third position from Phe, whereas
those coding for Cys are UGU and UGC, differing only in the second position from Phe.
i. Since the codons for Leu and Cys each differ in only one position from the codons for
Phe, why are the codons for Leu considered to be near-cognate to the codons for Phe,
whereas the codons for Cys are considered to be non-cognate to the codons for Phe?
ii. What is the consequence of this difference (near-cognate for Leu, non-cognate for
Cys) on how errors in translation at Phe codons affect protein stability?
B. (8 pts) Shown below is a typical backbone structure of tRNA.
i. Explain the significance of the sphere
sizes shown along backbone.
ii. What role does the single stranded 3’end play in ensuring the accuracy of
protein synthesis?

C. (8 pts) The release factors RF1 and RF2 share a conserved GGQ sequence. Draw a
chemical mechanism illustrating how this conserved sequence is involved in the release
of the completed peptide chain from peptidyl-tRNA.

(5 pts) Why are introns in eukaryotic protein-coding genes almost always > 65 nt in length? . and indicate the positions of the two exons and the intron relative to the site of chemical reaction. with the help of anadded small molecule. (10 pts) The tetrahymena precursor large subunit rRNA self splices. via a two-step process to form the mature 28S rRNA. (8 pts) Give two reasons why V/D/J recombination is frequently unsuccessful in yielding an mRNA that is translated into a functional immunoglobulin. C. Write a detailed chemical mechanism for the first step in this process.2. (23 pts) A. B. please use arrows to indicate which bonds are being formed and broken. In your answer.

present the detailed chemical mechanism for the reaction below HO O 2- O3POCH2CHCH O + HOCH2CCH2OPO32- B. (3 pts) Within the glycogen structure. what is a reducing end? . (18 pts) A.3. C. (10 pts) Using electron pushing. (5 pts) Briefly explain the effect of activated phosphorylase kinase on glycogen breakdown and formation.

(5 pts).4. (5 pts) Draw the the chemical structure of the 5’-cap. Describe the function that capping serves in eukaryotic translation. (6 pts) How do DICER and RISC complex combine to degrade specific mRNAs? In what compartment(s) of the cell do the various reactions involved in such degradation take take place? B.42V at pH 7? What would the value of Δε be at pH 6? ο ο . D. Write the half reaction for this electrode. Why is the potential -0. The Δε for the standard H2 electrode is 0 volts. (20 pts) A. (4 pts) Why could adding an inhibitor molecule to a bacterial culture that stalls ribosome-dependent protein synthesis also lead to premature termination of mRNA transcription? C.

(3 pts) Why aren’t triacylglycerols significant components of lipid bilayers? C. (15 pts) A. D.5. (4 pts) Draw the structure of a glycerophospholipid that has two fatty acyl groups (cis 9-hexadecanoic acid and trans. (4 pts) Which triacylglycerol yields more energy on oxidation. . B. trans 6. 9-octadienoic acid) and a phosphorylcholine head group. one containing three moles of linolenic acid (18:2) or one containing three moles of stearic acid (18:0)? Explain your answer. (4 pts) Explain why adipocytes need glucose as well as fatty acids in order to synthesize triacyl glycerols.

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