BCHS 3304 Homework Assignment: Calculations in Molecular Biology and Biochemistry - Prof. , Assignments of Biochemistry

Download BCHS 3304 Homework Assignment: Calculations in Molecular Biology and Biochemistry - Prof. and more Assignments Biochemistry in PDF only on Docsity! Dr. G.B. Legge Fall 2008 BCHS 3304 Homework #5 Basic Calculations, Enzymes Note: This homework will not be collected. However, quizzes and exams will assume that you have completed and understand the homework assignment and could answer related questions. Reading Assignment: Chapter 11 of Biochemistry. Note: Show all work and remember to incorporate your units in your calculations. 1. Your thesis advisor asks you to do your first restriction digest. This is a molecular biology technique that uses enzymes to cut DNA at specific sites. You are excited to hear that there are no solutions to be made up because your advisor has purchased enzymes from the Promega company and the concentrated stocks of reaction buffer including 10x buffer and 100x BSA (bovine serum albumen) come with the enzyme. The enzyme you need is EcoRI and it has a stock concentration of 1 U/l. Your DNA concentration is 5 g/l. You need to set up a 50 l reaction which incorporates 1 g DNA, 1x buffer, 1x BSA, and 0.5 U EcoRI. Calculate and describe how much of each stock solution, DNA, enzyme and water you would add to make up your restriction digest. 2. After your reaction has been running for 1 hour, you need to check the progress of the restriction digest by agarose gel electrophoresis. You need to make 100 ml of a 1% solution of agarose in 1x TAE. You remember that you made up a 50x TAE stock solution about a month ago. Calculate and describe how you would make your agarose gel. 3. Draw glutamic acid. What is its three-letter code? What is its one-letter code? Name one amino acid that would interact ionically with glutamic acid through their respective side chains. 4. Complete Problems # 1-3, 8, 9, 11-13, 15-18, 20 of Chapter 11 (p. 360-361) in your Biochemistry textbook. 5. Complete Problems # 2, 3, 4, 6, 7, 9, 10, 11, 12, 13, 15, 18, 21, 22, 23, 26, and 27 of Chapter 11 (p. 127-131) in the Student Companion to Biochemistry.