Syllabus

CHEM 452B, Autumn 2012 Syllabus

CHEM 452B Autumn 2012 Physical Chemistry for Biochemists I THE BASICS 1. Lectures: MWF 11:30 AM - 12:20 PM, 322, 2. Course Instructor: Dr. Bruce H. Robinson • Office: BAG 212 543-1773 • E-mail correspondence: [email protected] . Please put “CHEM 452” in the subject line. If the message is pertinent to the whole class, I will ask you to post it on the online discussion board (see below). 3. Grader:

Anthony Reynolds [email protected]

4. Tutorial/Office Hours: • Thursday, 11:30 AM – 12:20 PM, MUE 153 • Tuesday , 11:30 AM -- 12:20 PM, To Be Announced • CLUE and Chemistry Study Center , Bag 330 5. Web site: http://courses.washington.edu/bhrchem/ 6. Alt Web sites: http://faculty.washington.edu/gdrobny/chemi https://catalyst.uw.edu/workspace/che str452.htm/ mfa12/32047/ 7. GoPost: https://catalyst.uw.edu/gopost/board/b hrobin/29556/ 8. Text: Physical Chemistry in the Life Sciences by Thomas Engel, Gary Drobny and Philip Reid (ISBN: 0805382771) 9. Reserve Texts: The above text is placed on reserve in Odegaard. 10. Lecture Notes: The lecture notes will be posted a day or two ahead of each lecture. There may also be additions after class depending on what we are doing in lecture. MIDTERMS and FINAL EXAM The midterms and final exam have been scheduled for the following dates: • Midterm 1: Wednesday, October 17, 2011 • Midterm 2: Wednesday, November 14, 2011 • Final Exam: December, 12, 2011, 2:30 PM – 4:20 PM, BAG 154 Please check the web site and online discussion board for any changes to these times. HOMEWORK

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Homework assignments will be posted on the web site listed above. You are welcome to work together, but you have to turn in your own work. Handwritten homework has to be scanned in and submitted as a single .pdf file via Catalyst following the link on the website. If you don’t have a scanner, you can use scanners available on the 2nd floor of Odegaard Library for free. 1


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View all pages of your pdf before submitting it and verify that (1) it is a .pdf and not a .jpg or other format, (2) all pages are right side up, (3) all writing is dark enough to read, (4) you have made only one file containing many pages rather than many files of one page each, and (5) all writing falls within the area of the page that can be scanned. The grader will grade the single, last file that you upload before the deadline. You are welcome to upload new versions until the dropbox closes. The grader will check to make sure that you have made an attempt to solve every problem in a thoughtful and methodical fashion and your work is legible and neat. Based on this you will get your score. Each stage of each homework is worth 5 points although the number of questions may vary. I will have an A and B homework set each week (of course we will omit some for exams and holidays). Each homework will be done in two stages. You will have 3-4 days to do a rough draft, in which you make an attempt to do each problem. Then you will have a few days to look at my answer key and do a final, neat clean homework. Wednesday: The A set rough draft homework is due; the B set final draft homework is due. I will post the A set answer key and the new B homework set. Sunday: The A set final homework is due, and the first draft homework of the B set is due. I will post the B set answer key and the new A set homework. If this gets too complicated we can group the homework to have one set a week. So your feedback is important. Your lowest two homework scores will be dropped. Motivation: The only way to know whether you actually understand the material is to do homework. I know of no other way to test myself. Moreover, I use the homework to construct the exams. A good faith effort on all of the homework should have you well on your way to being ready for the exams.

Please check your homework with the answer key and make sure that you understand all the problems. GRADING FOR THE COURSE Homework sets (~150 points total): 25% of the grade Midterm 1 (100 points): 20% of the grade Midterm 2 (100 points): 20% of the grade Final (200 points): 35% of the grade OPTIONAL TUTORIAL SESSIONS • Either the TA or the instructor will be present during the optional tutorial session as listed earlier. • You may use these times to get started on the homework problems and raise questions about the course material. DISABILITY Please contact Disabled Student Services, 448 Schmitz, 543-8924 (V/TTY). If you have a letter from Disabled Student Services, please show me the letter so we can discuss the appropriate accommodations you may need for the class.

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DETAILED SCHEDULE Date 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20

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9/24/2012, M 9/26/2012, W 9/28/2012, F 10/1/2012, M 10/3/2012, W 10/5/2012, F 10/8/2012, M 10/10/2012, W 10/12/2012, F 10/15/2012, M 10/17/2012, W 10/19/2012, F 10/22/2012, M 10/24/2012, W 10/26/2012, F 10/29/2012, M 10/31/2012, W 11/2/2011, F 11/5/2012, M 11/7/2012, W 11/9/2012, F 11/12/2012, M 11/14/2012, W 11/16/2012, F 11/19/2012, M 11/21/2012, W 11/23/2012, F 11/26/2012, M 11/28/2012, W 11/30/2012, F 12/3/12, M 12/5/12, W 12/7/12, F 12/12/12, W

HW due HW 1aR S: HW1aF/1bR HW1bF/2aR S: HW2aF/2bR HW2bF/3aR S: HW3aF/3bR HW:3bF

S: HW4bR HW4bF/5aR S: HW5aF/5bR HW5bF/6aR S: HW6aF/6bR HW6bF/7aR S: HW7aF/7bR HW:7bF S: HW:8bR HW8bF/9aR S: HW:9aF HW: 9aR S: HW9aF/10bR HW:10bF

Topics Introduction to thermodynamics, Ideal gases Different kinds of work Reversible and Irreversible work Heat, Internal Energy, First Law, State Functions Enthalpy, Specific Heat Capacity, Heat Capacity State Functions and calculus. Thermochemistry, Reactions, and Calorimetry. Introduction to entropy, Carnot cycle, Calculating changes in entropy; Efficiency Exam 1 review MIDTERM 1 Third law of thermodynamics, microscopic description of entropy , Gibbs and Helmholtz Free Energies

Chemical potential Applications Maxwell’s relations, Rubber band demo Equilibrium constant, Ideal Solutions Non-Ideal Solutions; activity coefficients HOLIDAY MIDTERM 2 Phase Equilibria and Phase Diagrams Surface Phenomena, Conformational Transitions in Biomolecules HOLIDAY Colligative properties, Henry’s Law; Diving Real Solutions; Biological Molecules/Biochemical Equilibria Electrochemistry; Membrane Potentials Lattice Models (Regular Solution Theory) Polymers. FINAL EXAM, 2:30-4:20 pm, BAG 154

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Chapter s 1,2

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