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UD CHEM 342 - Final Examination - Individual (Part I)

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CHEM-342 Introduction to Biochemistry Final Examination - Individual (Part I) Friday, 26 May 2006 10:30 – 12:15 PM H. B. White - Instructor Range 28-72(2) out of 85, Average 53.5 Your Name____________________________ The tendency in course examinations is to pose the question, "How much do you remember of what has been covered?" rather than, "What can you do with what you have learned?" Richard Felder 1995 Important - Please read this before you turn the page. $ This examination will assess your learning, problem-solving skills, and ability to communicate clearly. It is intended to be challenging even to the best students in the class. Writing reflects how you think. Among the “right answers” I will read, some will be better than others because they show greater depth of understanding, avoid extraneous or inaccurate information, provide a more logical structure, use appropriate examples, and choose words with precision. Better quality answers will receive higher marks. Therefore organize your thoughts before you write. Strive to write not that you may be understood, but rather that you cannot possibly be misunderstood. Stream of consciousness answers are rarely well organized or clearly presented. $ There are 9 pages to this part of the examination (counting this cover page and the work sheet at the back). Please write your name on each page. Feel free to use the backs of pages if you need more space. $ Part I (75 points) This individual part of the examination, includes 4 problems and short essay questions. Also, you can obtain up to 10 additional points from two bonus questions. Part II (25 points) The group part of the examination will require you to deal with new information collaboratively. $ If you complete Part I early, you may leave the room for a break and return at or before 12:15 PM when Part II begins. $ You may refer to your notes, course reader, handouts, or graded homework assignments. $ Attempt to draw a picture or diagram as part of your answer to every question. $ Graded examinations may be picked up Wednesday morning, 31 May. $ Have a relaxing and safe Summer.CHEM-342 Introduction to Biochemistry Your Name ____________________________________ Final Examination Individual Part, 26 May 2006 Page 2 1. (43 points total) This problem has a number of parts in which you will apply what you have learned about protein structure and synthesis from the Pauling et al., Ingram, and Dintzis articles as well as your hemoglobinopathy assignment. When Dintzis published his first paper on the direction of protein synthesis, the amino acid sequence of hemoglobin was not known from any organism. He made the presumption that the labeled peptides he observed could be ordered in sequence by their increasing 3H/14C ratios. Soon after the sequence of human (not rabbit) hemoglobin was determined. Dintzis, with Naughton, published a second paper because the previous paper did not “constitute a rigorous proof of the sequential assembly of amino acids into hemoglobin.” Now the sequence of rabbit hemoglobin is known. It is aligned and displayed with human hemoglobin below. (You will be marking up this figure for your answer. Please tear off the last page of this exam and use it as a worksheet.) Alpha Chain Globins 10 20 30 40 RABBIT VLSPADKTNIKTAWEKIGSHGGEYGAEAVERMFLGFPTTKTY→ HUMAN VLSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTY→ 50 60 70 80 90 FPHFDFTHGSEQIKAHGKKVSEALTKAVGHLDDLPGALSTLSDLHAHKLR→ FPHFDLSHGSAQVKGHGKKVADALTNAVAHVDDMPNALSALSDLHAHKLR→ 100 110 120 130 141 VDPVNFKLLSHCLLVTLANHHPSEFTPAVHASLDKFLANVSTVLTSKYR VDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR Beta Chain Globin 10 20 30 40 RABBIT VHLSSEEKSAVTALWGKVNVEEVGGEALGRLLVVYPWTQRFFES→ HUMAN VHLTPEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFES→ 50 60 70 80 90 FGDLSSANAVMNNPKVKAHGKKVLAAFSEGLSHLDNLKGTFAKLSELHCDK→ FGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDK→ 100 110 120 130 140 146 LHVDPENFRLLGNVLVIVLSHHFGKEFTPQVQAAYQKVVAGVANALAHKYH LHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH The single-letter abbreviations for the 20 amino acids are: A = Alanine I = Isoleucine R = Arginine C = Cysteine K = Lysine S = Serine D = Aspartic Acid L = Leucine T = Threonine E = Glutamic Acid M = Methionine V = Valine F = Phenylalanine N = Asparagine W = Tryptophan G = Glycine P = Proline Y = Tyrosine H = Histidine Q = Glutamine Questions on next pageCHEM-342 Introduction to Biochemistry Your Name ____________________________________ Final Examination Individual Part, 26 May 2006 Page 3 1. (continued) Pay attention to detail. a. (4 points) Using a vertical line between letters to indicate peptide bond hydrolysis, identify all of places in the rabbit and human alpha and beta globin chains that are susceptible to trypsin hydrolysis. b. (6 points) Identify one trypsin-susceptible peptide bond by chain/number and draw the structure of the dipeptide that includes it. c. (4 points) Draw a box around every rabbit tryptic peptide that would contain radioactivity in Dintzis’ experiment. d. (2 points) Draw a line under every amino acid that is different in the human alpha and beta globins compared to the homologous rabbit sequences. e. (6 points) Using the standard genetic code on the yellow cards you have been given, identify with a star under those differences in part 1d that would require more than a one-base change in a codon. f. (6 points) How many sulfur atoms per iron atom are there in: Human hemoglobin? Rabbit hemoglobin? S/Fe = S/Fe = Referring to your answers to 1a & 1c the previous section: g. (5 points) Do you find any discrepancies between your analysis and what Dintzis reported in his first paper? If so, describe.CHEM-342 Introduction to Biochemistry Your Name ____________________________________


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UD CHEM 342 - Final Examination - Individual (Part I)

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