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Biochemistry and Molecular Biophysics

BMB/Bi/Ch 170. Biochemistry and Biophysics of Macromolecules and Molecular Assemblies. 9 units (3- 0-6); first term. P rerequisites: Bi/Ch 110. Detailed analysis of the structures of the four classes of biological molecules and the forces that shape them. Introduction to molecular biological and visualization techniques. Instructor: Clemons.

BMB/Bi/Ch 173. Biophysical/Structural Methods. 9 units (3-0-6); second term. Basic principles of modern biophysical and structural methods used to interrogate macromolecules from the atomic to cellular levels, including light and electron microscopy, X-ray crystallography, NMR spectroscopy, single molecule techniques, circular dichroism, surface plasmon resonance, mass spectrometry, and molecular dynamics and systems biological simulations. Instructors: Clemons, Jensen, and other guest lecturers

BMB/Bi/Ch 174. Molecular Machines in the Cell. 9 units (3-0-6); third term. Prerequisites: Bi/Ch 110, BMB/Bi/Ch 170, BMB/Bi/Ch 173. Detailed analysis of specific macromolecular machines and systems that illustrate the principles and biophysical methods taught in BMB/Bi/Ch 170 and BMB/Bi/Ch 173. Instructors: Clemons, Hoelz, Shan and various guest lecturers (subject to change each year).

BMB/Ch 178. Macromolecular Function: Kinetics, Energetics, and Mechanisms. 9 units (3-0-6); first term. Prerequisites: Bi/Ch 110 or equivalent. Discussion of the energetic principles and molecular mechanisms that underlie enzyme's catalytic proficiency and exquisite specificity. Principles of allosteric regulation, selectivity, enzyme evolution, and computational enzyme design. Practical kinetics sections discuss how to infer molecular mechanisms from rate/equilibrium measurements and their application to more complex biological systems, including steady-state and pre-steady-state kinetics, kinetic simulations, and kinetics at the single molecule resolution. Instructor: Shan.

BMB/Ch 202 abc. Biochemistry Seminar Course. 1 unit; first, second, third terms. A course that includes a seminar on selected topics from outside faculty on recent advances in biochemistry. Students will participate in the seminar along with a formal discussion section with visiting faculty. Students will meet with the Biochemistry seminar speaker in the discussion section for an hour, and then attend the Biochemistry seminar at 4 p.m. BMB Seminars take place 1-2 times per month (usually on Thursdays).

BMB/Ch 230. Macromolecular Structure Determination with Modern X-ray Crystallography Methods. 12 units (2-4-6); third term. Prerequisites: BMB/Bi/Ch 170 and consent of instructor. Advanced course in macromolecular crystallography integrating lecture and laboratory treatment of diffraction theory, crystallization (proteins, nucleic acids and macromolecular complexes), crystal characterization, X-ray sources and optics, crystal freezing, X-ray diffraction data collection (in-house and synchrotron), data reduction, multiple isomorphous replacement, single- and multi-wavelength anomalous diffraction phasing techniques, molecular replacement, electron density interpretation, structure refinement, structure validation, coordinate deposition and structure presentation. In the laboratory component, one or more proteins will be crystallized and the structure(s) determined by several methods, in parallel with lectures on the theory and discussions of the techniques Instructor: Hoelz.

Bi/BMB 251 abc. Current Research in Cellular and Molecular Biology. 1 unit. For course description, see Biology.

BMB 278. Fundamentals of Molecular Genetics. 9 units (3-0-6); third term. Principles and mechanisms of DNA repair and replication, transcription and splicing, and protein synthesis. Not offered 2016-17.

BMB 299. Graduate Research. Units to be arranged; first, second, third terms. Students may register for research units after consultation with their adviser.