MCB100A_ps1

MCB100A_ps1 - Problem Set 1. CHEM-130/MCB-100A. Fall 2011....

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Problem Set 1. READING: Chapters 1 and 2, draft textbook (available on bSpace) Note: This problem set contains questions pertaining to Chapter 1 and Chapter 2. This week you should review the material in Chapter 1, and work on the questions marked in bold . Hand in the 5 problems marked with a *** by Thursday September 1 in class. Put your name and that of your GSI on the solutions turned in. All answers must by handwritten in order to be graded. 1. The DNA copying process during replication occurs according to the Watson-Crick basepairing rules. Speculate as to how the variety that is necessary for natural selection may be generated by this process. 2. Why does replication only proceed in the 5’ -> 3’ direction, even though the two strands of DNA run in opposite directions? 3. Suppose you were told that the two strands of DNA could in fact be readily replicated in opposite directions (i.e., one in the 5’->3’ direction, and one in the 3’-5’ direction). Would you have to postulate the existence of a new high energy compound? If so, what would the chemical structure of this compound be? Clearly justify your answer. 4. List polymer molecules that are found in living systems. Which of these bear a direct relationship to the genetic code? 5. The following pictures show hydrogen bonding interactions (dashed lines) between nucleotide bases. (i) Identify each of the bases, and indicate which of these correspond to base-pairing (Watson- Crick) interactions in duplex (double stranded) DNA. (ii) For each Watson-Crick basepair, identify the minor groove edge and the major groove edge. Problem Set 1. CHEM-130/MCB-100A. Fall 2011. University of California, Berkeley Page 1 Page 1 of 9
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(i) Identify each nucleotide. (ii) The “A-minor interaction” is commonly seen in folded RNA molecules, and involves the interaction of one adenine with the minor groove of a double helical segment (the adenine is not itself a part of the double helix). Look at the two interactions below, one of which corresponds to a minor groove interaction. Which of the two interactions corresponds to the A-minor interaction in RNA? Justify your answer. 7.*** The following picture shows a graphical representation of the structure of a peptide segment (short portion of a larger protein chain). Hydrogen atoms are not shown. Nitrogen and sulfur atoms are indicated by “N” and “S”. Sidechain oxygen atoms are indicated by “*”. Identify each of the amino acid residues in the peptides. Draw a linear chemical structure showing the covalent bonding, including the hydrogen atoms, of the entire peptide. Problem Set 1.
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This note was uploaded on 09/14/2011 for the course MCB 58180 taught by Professor Kuriyan during the Spring '11 term at Berkeley.

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MCB100A_ps1 - Problem Set 1. CHEM-130/MCB-100A. Fall 2011....

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