[PDF] SYLLABUS Advanced Biochemistry CHEM-UA 890 Spring 2018 (4

30006_7CHEMUA890_Adv_Biochem_Traaseth_Spring2018.pdf

SYLLABUS Advanced Biochemistry CHEM-UA 890 Spring 2018 (4 credits) LECTURE 11:00 AM - 12:15 PM Mon/Wed, Silver 411 INSTRUCTOR Nate Traaseth traaseth@nyu.edu 660 Brown Office hours: Thur 10:15-11:30 AM RECITATION Section 101: Wed 9:30 AM - 10:45 AM at WAVE 366 Section 102: Wed 4:55 PM - 6:10 PM at 60FA 165 Section 103: Wed 12:30 PM - 1:45 PM at 25W4 C-13 RECITATION INSTRUCTOR Rohini Qamra rohini.qamra@nyu.edu Steven Forte sgf260@nyu.edu TEXTBOOKS Required: The Molecules of Life, Kuriyan, Konforti, Wemmer, ISBN 978-0-8153-4188-8

. Recommended: 1. Undergraduate biochemistry textbook 2. Proteins: Structures and Molecular Properties. Thomas Creighton. 3. Undergraduate physical chemistry textbook (e.g., Physical Chemistry: Principles and Applications in Biological Sciences. Tinoco et al.

) COURSE CONTENT AND GRADES This is a one-semester class for undergraduate students majoring in biochemistry or chemistry. The course will discuss advanced topics in biochemistry with an emphasis on structure-function relationships and techniques for probing structure and dynamics of biological systems. Topics will include molecular recognition, protein folding, cooperativity, allostery, spectroscopy, structural biology, and molecular dynamics. Classic and modern articles will be discussed throughout the semester to emphasize historically important publications and state-of-the-art approaches in biochemistry and biophysical chemistry. (1) Class Website NYU Classes will be used to post information. Check this site on a regular basis. (2) Grades Exams 70% Quizzes 15% Presentations 15%

Exams. There will be three equally weighted exams. The third exam will not be cumulative. An unexcused absence from an exam will result in a score of zero. Make sure an excused absence is validated by an NYU student health professional. Quizzes. There will be quizzes given during the semester. There will be an opportunity to drop one or two of the quiz results. Absences count toward the dropped scores. Presentation. 10% of your grade is reserved for a team presentation on "Classics in Biochemistry". Each team of two students will make a 10-min presentation in recitation on a historically important biochemistry research paper that has defined the field. Choose an article related to a topic discussed in class that has received 250 or more citations and was published in or before 2010. Write a one-page report that explains why the paper is important. Include the title, authors, journal, and times cited. The number of citations an article has received can be found using Google scholar (https://scholar.google.com). Additional details will be given in your recitation section; the article requires approval from your recitation instructor. (3) Academic Integrity Students who fail to conform to NYU's standards on academic integrity including cheating and plagiarism will be subject to disciplinary action. "Essential to the process of teaching and learning is the periodic assessment of students' academic pr ogress t hrough measures such as papers, exam inations, presentations, and other projects. Academic dishonesty compromises the validity of these assessments as well as the relationship of trust within the community." - read the web link for additional details: https://www.nyu.edu/about/policies-guidelines-compliance/policies-and-guidelines/academic-integrity-for-students-at-nyu.html (4) Learning Center Help Free peer tutoring, Study Slams, group reviews, and workshops. University Learning Center: www.nyu.edu/ulc

Tentative Schedule DATE LECTURE TOPIC Jan 22 1 Course introduction and intermolecular interactions Jan 24 2 Review of biomolecular structure and function Jan 29 3 Jan 31 4 Recombinant DNA technology and protein purification Feb 5 5 Protein folding Feb 7 6 Techniques to probe protein folding: CD spectroscopy, fluorescence, and H/D exchange Feb 12 7 Cellular folding with chaperones Feb 14 8 Biophysics of cell membranes and membrane proteins I Feb 19 NO CLASS (Presidents' Day) Feb 21 9 Biophysics of cell membranes and membrane proteins II Feb 26 10 Molecular transport and single molecule FRET Feb 28 EXAM 1 Mar 5 11 Molecular recognition and specificity Mar 7 12 Techniques to probe binding interactions Mar 12 NO CLASS (Spring Break) Mar 14 Mar 19 13 Drug discovery approach Mar 21 14 Protein-protein interactions Mar 26 15 Determination of protein structure: X-ray crystallography Mar 28 16 Apr 2 17 Cell signaling through GPCRs Apr 4 18 Modular interactions in RTK cell signaling Apr 9 EXAM 2 Apr 11 19 Allostery and cooperativity Apr 16 20 Enzymes as allosteric entities Apr 18 21 Post-translational modifications Apr 23 22 Basics of NMR spectroscopy I Apr 25 23 Basics of NMR spectroscopy II Apr 30 24 Measuring conformational dynamics by NMR May 2 25 Characterization of macromolecular assemblies: solid-state NMR and cryoelectron microscopy May 7 26 May 14 EXAM 3 (at 10AM)