6 - MCB 102 University of California, Berkeley Isabelle...

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MCB 102 University of California, Berkeley July 28-30, 2009 Isabelle Philipp Handout Problem Set 6 The answer key will be posted by Tuesday July 28 . Try to solve the problem sets always first without the answer key. Remember, your goal is to be able to solve biochemical problems in the exams. If you can not solve one of the problems try to solve it together with one of your classmates or ask your GSI during discussion section. Don’t just wait for the answer key. The answer key should only confirm that you solved the problem correctly! Exercises and Problem Sets are for extra practice and exam preparation, and should not be turned in. Recommended problems from the book: Chapter 8: 1, 2, 3, 6, 8, 9, 11, 12, (15) Chapter 24: 1, 3, 4, 5, 7, 8, 9, (14) Chapter 25: 2, 3, 4, 1. A double-stranded DNA molecule contains 20% adenine. Determine the number of cytosine bases if the DNA molecule is: (a) 1000bp long (b) 1cm long 2. DNA Sequences Write the DNA base sequences that complement each of the following DNA strands. a) 5’ AATCGCCCATTGCAGTTC 3’ b) 5’ CGATTGGCTTA 3’ 3. Writhe and Twist Starting with a closed circular DNA of 5250 base pairs with σ = -0.004 (assume 10.5 bp/turn for B-DNA). (a) Calculate the writhe (W) of this DNA. (b) Calculate the twist (T) and linking number (L) for this DNA. (c) Calculate the circumference of the circular DNA when W = 0. (d) Now, if 13 base pairs have melted out, as in the initiation of the replication bubble in E. coli, calculate the twist (T), linking number (L), and writhe (W) for the resulting circular DNA.
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This note was uploaded on 09/28/2009 for the course MCB 102 taught by Professor Staff during the Summer '08 term at University of California, Berkeley.

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6 - MCB 102 University of California, Berkeley Isabelle...

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