Chemistry and Biochemistry
Courses
For course descriptions not found in the UC San Diego General Catalog, 2009–10, please contact the department for more information.
Lower-Division
4. Basic Chemistry (4)
Chemistry 4 is a one-quarter course for science majors with insufficient preparation to start the Chem. 6 sequence. Emphasis is on learning how to solve quantitative problems. Topics include nomenclature, stoichiometry, and the periodic table. Includes a combined laboratory and discussion-recitation each week. Prerequisite: Math. 3C or 4C. Cannot be taken for credit after any other chemistry course. Intended for science majors. (F)
6A. General Chemistry I (4)
First quarter of a three-quarter sequence intended for science and engineering majors. Topics include: stoichiometry, gas laws, bonding, atomic theory, quantum theory, and thermochemistry. Three hours lecture, one hour recitation. Prerequisites: proficiency in high school chemistry or physics. Math. 10A or 20A or a higher course in the Math. 10 or 20 sequence (may be taken concurrently). (F,W,S)
6AH. Honors General Chemistry I (4)
First quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics include: stoichiometry, gas laws, bonding, atomic theory, quantum theory, and thermochemistry. Three hours lecture and one hour recitation. Students may not receive credit for both Chem. 6AH and Chem. 6A. Prerequisites: proficiency in high school chemistry, physics and mathematics. Math. 10A or 20A or a higher course in the Math. 10 or 20 sequence. Concurrent enrollment in Math. 20A or higher level calculus required. (F)
6B. General Chemistry II (4)
Second quarter of a three-quarter sequence intended for science and engineering majors. Topics include: molecular geometry, condensed phases and solutions, chemical equilibrium, acids and bases and thermodynamics. Three hours lecture and one hour recitation. Prerequisites: Chem. 6A, Math. 10A or 20A or a higher course in the Math. 10 or 20 sequence. (F,W,S)
6BH. Honors General Chemistry II (4)
Second quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics include: molecular geometry, condensed phases and solutions, chemical equilibrium, acids and bases and thermodynamics. Students may not receive credit for both Chem. 6BH and Chem. 6B. Three hours lecture and one hour recitation. Prerequisites: Chem. 6AH, Math. 10A or 20A or a higher course in the Math. 10 or 20 sequence. (W)
6BL. Introductory Inorganic Chemistry Laboratory (3)
Introduction to experimental procedures used in synthetic, inorganic, analytical, and physical chemistry. Preferably taken concurrently with Chem. 6C. A meterials fee is required. A mandatory safety exam must be passed within the first two weeks. (F,W,S)
6C. General Chemistry III (4)
Third quarter of a three-quarter sequence intended for science and engineering majors. Topics include: electrochemistry, kinetics, coordination chemistry, nuclear chemistry, and an introduction to organic and biochemistry. Three hours lecture and one hour recitation. Prerequisite: Chem. 6B; Chem. 6BL may be taken concurrently. (F,W,S)
6CH. Honors General Chemistry III (4)
Third quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics include: electrochemistry, kinetics, coordination chemistry, nuclear chemistry, and an introduction to organic and biochemistry. Three hours lecture and one hour recitation. Students may not receive credit for both Chem. 6CH and Chem. 6C. Prerequisites: Chem. 6BH, Math. 20B; Chem. 6BL may be taken concurrently. (S)
11. The Periodic Table (4)
Introduction to the material world of atoms and small inorganic molecules. Intended for nonscience majors. Can be skipped by students with a good knowledge of high school chemistry. Cannot be taken for credit after any other general chemistry course. (F)
12. Molecules and Reactions (4)
Introduction to molecular bonding and structure and chemical reactions, including organic molecules and synthetic polymers. Intended for nonscience majors. Prerequisite: Chem. 11 or good knowledge of high school chemistry. Cannot be taken for credit after any organic chemistry course. (W)
13. Chemistry of Life (4)
Introduction to biochemistry for nonscience majors. Prerequisite: Chem. 12. Cannot be taken for credit after any biochemistry course. (S)
15. Chemistry of the Universe (4)
This is a one-quarter, nonmathematical chemistry course for nonscience majors covering the origin of the universe, the elements, and the formation of the solar system. The evolution of the Earth’s atmosphere, hydrosphere, geosphere, and biosphere will be covered, as well as contemporary problems in environmental chemistry. Cannot be taken for credit after any other chemistry course.
87. Freshman Seminar in Chemistry and Biochemistry (1)
This seminar will present topics in chemistry at a level appropriate for first-year students.
90. Undergraduate Seminar (1)
The seminar will focus on a variety of issues and special areas in the field of chemistry.
91. Undergraduate Honors Seminar (1)
A seminar intended for exposing undergraduate students, especially freshmen and sophomores, to exciting research programs conducted by the faculty. Enrollment is limited.
92. Undergraduate Pharmacology Seminar (1)
Selected topics in pharmacology and toxicology. (S)
96. Introduction to Teaching Science (2)
(Cross-listed with EDS 31.) Revisit students’ learning difficulties in science in more depth to prepare students to make meaningful observations of how K-12 teachers deal with these difficulties. Explore how instruction can use students’ knowledge to pose problems that stimulate students’ intellectual curiosity. Prerequisite: This course is available to undergraduate students on a space-available basis.
99. Independent Study (2 or 4)
Independent literature or laboratory research by arrangement with and under the direction of a member of the Department of Chemistry and Biochemistry faculty. Students must register on a P/NP basis. Prerequisites: lower-division standing, 3.0 minimum UCSD GPA, consent of instructor and department, completion of 30 units of undergraduate study at UCSD, completed and approved Special Studies form.
Upper-Division
100A. Analytical Chemistry Laboratory (4)
Laboratory course emphasizing classical quantitative chemical analysis techniques, including separation and gravimetric methods, as well as an introduction to instrumental analysis. Prerequisites: CHEM 6C or 6CH or equivalent, and CHEM 6BL or equivalent; PHYS 2CL or 2BL recommended. A materials fee is required for this course. A mandatory safety exam must be passed within the first two weeks. (F, W, S)
100B. Fundamentals of Instrumental Analysis (2)
Fundamental theoretical principles, capabilities, applications, and limitations of modern analytical instrumentation used for qualitative and quantitative analysis. Students will learn how to define the nature of an analytical problem and how to select and appropriate analytical method. Prerequisites: Chem. 100A or graduate standing, and Phys. 2A-B-D or equivalent; Phys. 2CL or 2BL recommended. (Note: Students may not receive credit for both Chem. 100B and Chem. 106.) (F,W,S)
100BL. Instrumental Analysis Laboratory (3)
Hands-on laboratory course focuses on the development of correct laboratory work habits and methodologies for the operation of modern analytical instrumentation. Gas chromatography, gas-chromatography-mass spectrometry, high performance liquid chromatography, ion chromatography, atomic absorption spectroscopy. Chem. 100BL is for undergraduates only. Prerequisites: Chem. 100A; Phys. 2A-2B-2D, or equivalent; concurrent enrollment with Chem. 100B. Phys. 2BL or 2CL recommended. (Note: Students may not receive credit for both Chem. 100B and Chem. 106.) (F, W, S)
104. Introduction to X-ray Crystallography (4)
(Conjoined with Chem. 204.) Analysis of macromecular structures by X-ray diffraction. Topics include symmetry, geometry of diffraction, detection of diffraction, intensity of diffracted waves, phase problem and its solution, heavy atom method, isomorphous replacement, anomalous dispersion phasing methods (MAD), direct methods, molecular replacement. Prerequisites: Phys. 2A-B.
105A. Physical Chemistry Laboratory (5)
Laboratory course in experimental physical chemistry. Prerequisites: Chem.100A and Phys. 2CL or equivalent, Chem. 126 or 127 or 131 or 133. A materials fee is required for this course. (F,W,S)
105B. Physical Chemistry Laboratory (4)
Laboratory course in experimental physical chemistry. Prerequisite: Chem. 105A. A materials fee is required for this course. (F,W,S)
112A. Molecular Biochemistry Laboratory (6)
The application of techniques to study protein structure and function, including electrophoresis, protein purification, column chromatography, enzyme kinetics, and immunochemistry. Prerequisites: Chem. 140A-B-C, 143A, 114A. (Some of these courses may be taken concurrently.) (Note: Students may not receive credit for both Chem. 112A and BIBC 103.) A materials fee is required for this course. (W)
112B. Molecular Biochemistry Laboratory (6)
This laboratory will introduce the students to the tools of molecular biology and will involve experiments with recombinant DNA techniques. Prerequisites: Chem. 114A-B, Chem. 114C (may be taken concurrently); Chem. 143A and 143B. (Note: Students may not receive credit for both Chem. 112B and BIMM 101.) A materials fee is required for this course. (S)
113. Chemistry of Biological Macromolecules (4)
(Conjoined with Chem. 213.) A discussion of the structural principles governing biological macromolecules, the techniques used in their study, and how their functional properties depend on three-dimensional structure. Chem. 213 students will be expected to complete additional course work beyond that expected of students in Chem. 113. Prerequisites: elementary organic and physical chemistry. (May not be offered every year.)
114A. Biochemical Structure and Function (4)
Introduction to biochemistry from a structural and functional viewpoint. Prerequisite: elementary organic chemistry (Chem. 140A or equivalent). (Note: Students may not receive credit for both Chem. 114A and BIBC 100.) (F, W)
114B. Biochemical Energetics and Metabolism (4)
This course is an introduction to the metabolic reactions in the cell which produce and utilize energy. The course material will include energy-producing pathways: glycolysis, Krebs cycle, oxidative phosphorylation, fatty-acid oxidation. Biosynthesis of amino acids, lipids, carbohydrates, purines, pyrimidines, proteins, nucleic acids. Prerequisite: Chem. 114A or BIBC 100. (Note: Students may not receive credit for both Chem. 114B and BIBC 102) (W)
114C. Biosynthesis of Macromolecules (4)
This course is a continuation of the introduction to biochemistry courses (114A and 114B). This quarter reviews the mechanisms of biosynthesis of macromolecules–particularly proteins and nucleic acids. Emphasis will be placed on how these processes are controlled and integrated with the metabolism of the cell. Prerequisite: Chem. 114B or BIBC 102. (Note: Students may not receive credit for both Chem. 114C and BIMM 100.) (S)
114D. Molecular and Cellular Biochemistry (4)
(Conjoined with Chem. 214.) This course represents a continuation of 114C, or an introductory course for first- and second-year graduate students, and covers topics in molecular and cellular biochemistry. Emphasis will be placed on contemporary approaches to the isolation and characterization of mammalian genes and proteins, and molecular genetic approaches to understanding eukaryotic development and human disease. Chem. 214 students will be required to complete additional course work beyond that expected of students in Chem. 114D. Prerequisites: Chem. 114A-C or consent of instructor. (May not be offered every year.)
115. Modeling Biological Macromolecules (4)
Use of computer graphics and modeling methods in the study of biological macromolecules. The course will cover basic methods and techniques. The objective is to provide a good working knowledge of the critical features of the methods and to provide a foundation for further study for those who wish to pursue these methods as research topics. Prerequisite: Chem. 114A or equivalent. (May not be offered every year.)
116. Chemistry of Enzyme Catalyzed Reactions (4)
A discussion of the chemistry of representative enzyme catalyzed reactions is presented. Enzyme reaction mechanisms and their relation to enzyme structure are emphasized. Prerequisites: Chem. 140C, 114A, and 126 or 131. (May not be offered every year.)
118. Pharmacology and Toxicology (4)
A survey of the biochemical action of drugs and toxins as well as their absorption and excretion. Prerequisites: Chem. 140C or 141C; and Chem. 114C or consent of instructor. Priorities will be given to PharmChem majors. (S)
120A. Inorganic Chemistry I (4)
The chemistry of the main group elements in terms of atomic structure, ionic and covalent bonding. Structural theory involving s, p, and unfilled d orbitals. Thermodynamic and spectroscopic criteria for structure and stability of compounds and chemical reactions of main group elements in terms of molecular structure and reactivity. Prerequisites: a general chemistry course. Chem. 140A or equivalent course is recommended. (F)
120B. Inorganic Chemistry II (4)
A continuation of the discussion of structure, bonding, and reactivity with emphasis on transition metals and other elements using filled d orbitals to form bonds. Coordination chemistry in terms of valence bond, crystal field, and molecular orbital theory. The properties and reactivities of transition metal complexes including organometallic compounds. Prerequisite: Chem. 120A. (W)
123. Advanced Inorganic Chemistry Laboratory (4)
Synthesis, analysis, and physical characterization of inorganic chemical compounds. A materials fee is required for this course. Prerequisites: Chem. 120A, 143AH or 143A. Chem. 120B and 143B may be taken concurrently. (W,S)
124. Bioinorganic Chemistry (4)
(Conjoined with Chem. 225.) The role of metal ions in biological systems, with emphasis on transition metal ions in enzymes that transfer electrons, bind oxygen, and fix nitrogen. Also included are metal complexes in medicine, toxicity, and metal ion storage and transport. Chem. 225 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 124. Prerequisite: Chem. 6C or 6CH. Recommended: Chem. 114A and 120A. (May not be offered every year.)
126. Physical Chemistry (4)
An introduction to physical chemistry with emphasis on biochemical and environmental applications. Quantum mechanics and molecular structure, spectroscopy. Prerequisites: Phys. 2D, Math. 20D or 21D; or consent of instructor. (F)
127. Physical Chemistry (4)
An introduction to physical chemistry with emphasis on biochemical and environmental applications. Thermodynamics, first and second laws, thermochemistry, chemical equilibrium, solutions, kinetic theory, reaction kinetics. Prerequisite: Chem. 126 or consent of instructor. (W)
131. Physical Chemistry (4)
Thermodynamics, chemical equilibrium, phase equilibrium, chemistry of solutions. Prerequisites:Math. 20C or 21C, and Phys. 2B. Recommended: Math. 20D or 21D, and Phys. 2D. (F)
132. Physical Chemistry (4)
Chemical statistics, kinetic theory, reaction kinetics. Prerequisites: Math. 20D or 21D, and Phys. 2B. Recommended: Phys. 2D. (W)
133. Physical Chemistry (4)
Quantum mechanics, atomic and molecular spectroscopy, molecular structure. Prerequisites: Chem. 132 and Phys. 2D; or Chem. 6C, Math. 20D or 21D, Math. 20F, and Phys. 2AB; or consent of instructor. (S)
135. Molecular Spectroscopy (4)
(Conjoined with Chem. 235.) Time-dependent behavior of systems; interaction of matter with light; selection rule. Radiative and nonradiative processes, coherent phenomena, and the density matrices. Instrumentation, measurement, and interpretation. Chem. 235 students will be required to complete additional course work beyond that expected of students in Chem. 135. Prerequisites: Chem. 133 or equivalent; Math. 20D or 21D, or Chem. 190/290. (May not be offered every year.)
140A. Organic Chemistry I (4)
Introduction to organic chemistry, with applications to biochemistry. Bonding theory, isomerism, stereochemistry, chemical and physical properties. Introduction to substitution, addition, and elimination reactions. Students may not receive credit for both Chem. 140A and Chem. 141A. Prerequisite: Chem. 6C or equivalent course in general chemistry. (F,W,S)
140B. Organic Chemistry II (4)
Continuation of Organic Chemistry I, 140A. Methods of analysis, chemistry of hydrocarbons, chemistry of the carbonyl group. Introduction to the reactions of biologically important molecules. Students may not receive credit for both Chem. 141B and Chem. 140B. Prerequisite: Chem. 140A (a grade of C or higher in Chem. 140A is strongly recommended). (F,W,S)
140BH. Honors Organic Chemistry (4)
Continuation of Organic Chemistry I, Chem. 140A, at honors level. Methods of analysis, chemistry of hydrocarbons, carbonyls, and biologically important molecules. Emphasis on mechanistic aspects of reactions and structure-reactivity relationships. Students may not receive credit for Chem. 140B and Chem. 140BH. Prerequisite: Grade of B+ or higher in Chem. 140A.
140C. Organic Chemistry III (4)
Continuation of Organic Chemistry I (140A) and Organic Chemistry II (140B). Organic chemistry of biologically important molecules: carboxylic acids, carbohydrates, proteins, fatty acids, biopolymers, natural products. Students may not receive credit for both Chem. 140C and Chem. 141C. Prerequisite: Chem. 140B (a grade of C or higher in Chem. 140B is strongly recommended). (F,W,S)
140CH. Honors Organic Chemistry (4)
Continuation of Organic Chemistry 140B or 140BH, at honors level. Chemistry of carbonylic acids, carbohydrates, proteins, lipids biopolymers, natural products. Emphasis on mechanistic aspects and structure reactivity relationships. Prerequisites: Grade of B+ or higher in Chem. 140B, or B– higher in Chem. 140BH.
143A. Organic Chemistry Laboratory (4)
Introduction to organic laboratory techniques. Separation, and purification, spectroscopy, product analysis, and effects of reaction conditions. Prerequisites: Chem. 6BL and Chem. 140A or Chem. 141A. A materials fee is required. A mandatory safety exam must be passed within the first two weeks. (Note: Students may not receive credit for both Chem. 143A and Chem. 143AH. ) (F,W,S)
143AH. Honors Organic Chemistry Laboratory (4)
Organic chemistry laboratory for chemistry majors and other honors-evel students with strong background in Chem. 140A. Similar to Chem. 143A, but emphasizes instrumental methods of product identification, separation, and analysis. Prerequisites: Chem. 6BL and “B” or better grade in Chem. 140A. A materials fee is required. A mandatory safety exam must be passed within the first two weeks. (Note: Students may not receive credit for both Chem. 143A and Chem. 143AH.) (W)
143B. Organic Chemistry Laboratory (4)
Continuation of Chem. 143AH or 143A, emphasizing synthetic methods of organic chemistry. Prerequisites: Chem. 143AH or 143A, Chem. 140B (may be taken concurrently). Enrollment is limited to majors in the Department of Chemistry and Biochemistry, unless space is available. A materials fee is required for this course. (W,S)
143C. Organic Chemistry Laboratory (5)
Identification of unknown organic compounds by a combination of chemical and physical techniques. This course is intended for chemistry majors only. Prerequisites: Chem. 6CL or 100A and 143 AH or 143A or equivalent (may be taken concurrently); 143B recommended. A materials fee is required for this course. (F)
143D. Molecular Design and Synthesis (4)
Advanced organic synthesis. Relationships between molecular structure and reactivity using modern synthetic methods and advanced instrumentation. Stresses importance of molecular design, optimized reaction conditions for development of practically useful synthesis, and problem-solving skills. Prerequisites: Chem. 140C and Chem. 143B. A materials fee is required for this course. (S)
149A. Environmental Chemistry (4)
The chemical basis of air and water pollution, chlorofluorocarbons and the ozone hole, the environmental impact of radioactive waste disposal, mineral resource usage, and nuclear energy. Prerequisite: Chem. 6C or 6CH or equivalent. (F)
149B. Environmental Chemistry (4)
Agricultural productivity, biological impact on the environment, deforestation, environmental disasters (fires, nuclear winter, and volcanoes), and organic waste handling. Prerequisite: Chem. 149A. (W)
151. Molecules that Changed the World (4)
A look at some of nature’s most intriguing molecules and the ability of man to discover, synthesize, modify, and use them. The role of chemistry in society, and how chemical synthesis—the art and science of constructing molecules—shapes our world. Prerequisite: Chem. 140A or equivalent.
152. Synthetic Methods in Organic Chemistry (4)
(Conjoined with Chem. 252; formerly Chem. 148.) A survey of reactions of particular utility in the organic laboratory. Emphasis is on methods of preparation of carbon-carbon bonds and oxidation reduction sequences. Chem. 252 students will be required to complete an additional paper and/or exam. Prerequisite: Chem. 140C or Chem. 141C or consent of instructor.
154. Mechanisms of Organic Reactions (4)
(Conjoined with Chem. 254; formerly Chem. 147.) A qualitative approach to the mechanisms of various organic reactions; substitutions, additions, eliminations, condensations, rearrangements, oxidations, reductions, free-radical reactions, and photochemistry. Includes considerations of molecular structure and reactivity, synthetic methods, spectroscopic tools, and stereochemistry. The topics emphasized will vary from year to year. This is the first quarter of the advanced organic chemistry sequence. Chem. 254 students will be required to complete an additional paper/exam. Prerequisite: Chem. 140C or 141C.
155. Synthesis of Complex Molecules (4)
(Conjoined with Chem. 255; formerly Chem. 144.) This course discusses planning economic routes for the synthesis of complex organic molecules. The uses of specific reagents and protecting groups will be outlined as well as the control of stereochemistry during a synthesis. Examples will be selected from the recent literature. Chem. 255 students will be required to complete an additional paper/exam. (May not be offered every year.) Prerequisite: Chem. 152 or 252 or consent of instructor.
156. Structure and Properties of Organic Molecules (4)
(Conjoined with Chem. 256; formerly Chem. 145.) Introduction to the measurement and theoretical correlation of the physical properties of organic molecules. Topics covered include molecular geometry, molecular-orbital theory, orbital hybridization, aromaticity, chemical reactivity, stereochemistry, infrared and electronic spectra, photochemistry, and nuclear magnetic resonance. Chem. 256 students will be required to complete an additional paper/exam. Prerequisites: Chem. 140ABC or 141ABC or the equivalent.
157. Bioorganic and Natural Products Chemistry (4)
(Conjoined with Chem. 257; formerly Chem. 142.) A comprehensive survey of modern bioorganic and natural products chemistry. Topics will include biosynthesis of natural products, molecular recognition, and small molecule-biomolecule interactions. Prerequisite: Chem. 140C or 141C or 254 or consent of the instructor.
158. Applied Spectroscopy (4)
(Conjoined with Chem. 258.) Intensive coverage of modern spectroscopic techniques used to determine the structure of organic molecules. Problem solving and interpretation of spectra will be strongly emphasized. Chem. 258 students will be required to write and submit a paper that reviews a recent research publication that reports the structure determination by spectroscopic methods of natural products. Prerequisite: Chem. 154 or 254, or consent of instructor.
161. Supramolecular Coordination Chemistry (4)
(Conjoined with Chem. 261.) An introduction and survey of modern coordination chemistry. Topics will include structure and bonding of alkali, transition, lanthanide and actinide metals, with emphasis on the first row transition metals; stereochemistry, coordination clusters, molecular solids and nanoparticles. Prerequisites: Chem. 120A and 120B or equivalent.
165. 3D Electron Microscopy of Macromolecules (4)
(Conjoined with Chem. 265; cross-listed with BIMM 162/BGGN 262.) Biological macromolecules and supramolecular complexes as well as organelles, and small cells are being examined in three-dimensions by modern electron cryomicroscopy and image reconstruction techniques. The basic principles of transmission electron microscopy and 3D image reconstruction are discussed. Chem. 265/BGGN 262 students will be required to complete an additional assignment/exam beyond that expected of students in Chem. 165/BIMM 162. Prerequisites: Chem. 114A or BIBC 100 or BIBC 110, and Phys. 1A-B-C or Phys. 2A-B-D.
166. Environmental and Molecular Toxicology (4)
(Conjoined with Chem. 266.) Molecular and cellular mechanisms underlie the actions of environmental toxicants. This course will investigate approaches to study the impact of environmental toxicants on human health. Other modern approaches that are being implemented to detect and remediate environmental toxicants will also be examined. Chem. 266 students will be required to complete an additional assignment/exam beyond that expected of students in Chem. 166. Prerequisites: Chem. 114A-B.
173. Atmospheric Chemistry (4)
(Conjoined with Chem. 273.) Chemical principles applied to the study of atmospheres. Atmospheric photochemistry, radical reactions, chemical lifetime determinations, acid rain, greenhouse effects, ozone cycle, and evolution are discussed. Chem. 273 students will be required to complete an additional assignment/exam beyond that expected of students in Chem. 173. Prerequisites: Chem. 6A-6C or 6AH, 6BH, and 6 CH, or quivalent. (S)
174. Chemical Principles of Marine Systems (4)
(Cross-listed with SIO 141.) Introduction to the chemistry and distribution of the elements in seawater, emphasizing basic chemical principles such as electron structure, chemical bonding, and group and periodic properties and showing how these affect basic aqueous chemistry in marine systems. Prerequisite: Chem. 6C with a grade of C– or better, or consent of instructor. (May not be offered every year.)
182. Biological Databases (4)
(Cross-listed with BIMM 182/BENG 182/CSE 182.) This course provides an introduction to the features of biological data, how those data are organized efficiently in databases, and how existing data resources can be utilized to solve a variety of biological problems. Object oriented databases, data modeling, and description. Survey of current biological database with respect to above, implementation of database on a biological topic. Prerequisite: CSE 100 or Math. 176. Bioinformatics majors only.
184. Computational Molecular Biology (4)
(Cross-listed with BIMM 184/BENG 184/CSE 184.) This advanced course covers the application of machine learning and modeling techniques to biological systems. Topics include gene structure, recognition of DNA and protein sequence patterns, classification, and protein structure prediction. Pattern discovery, Kidden Markov models/support vector machines/neural network/profiles, protein structure prediction, functional characterization or proteins, functional genomics/proteomics, metabolic pathways/gene networks. Prerequisites: BIMM 181 or BENG 181 or CSE 181; BIMM 182 or BENG 182 or CSE 182 or CHEM 182. Bioinformatics majors only.
185. Introduction to Computational Chemistry (4)
(Conjoined with Chem. 285.) Course in computational methods building on a background in mathematics and physical chemistry. Brief introduction and background in computational theory, molecular mechanics, semi-empirical methods, and ab initio-based methods of increasing elaboration. Emphasis on applications and reliability. Chem. 285 students will be required to complete an additional assignment/exam beyond that expected of students in Chem. 185. Prerequisites: Chem. 126 or 133 and Math. 20C or 21C. (May not be offered every year.)
187. Foundations of Teaching and Learning Science (4)
(Cross-listed with EDS 122.) Examine theories of learning and how they are important in the science classroom. Conceptual development in the individual student, as well as the development of knowledge in the history of science. Key conceptual obstacles in science will be explored. Prerequisites: Chem. 6C and Chem. 96.
188. Capstone Seminar in Science Education (4)
(Cross-listed with EDS 123.) In the lecture and observation format, students continue to explore the theories of learning in the science classroom. Conceptual development is fostered, as well as continued development of knowledge of science history. Students are exposed to the science of teaching in science in actural practice. Prerequisites: Chem. 6C and Chem. 187/EDS 122.
192. Senior Seminar in Chemistry and Biochemistry (1)
The Senior Seminar Program is designed to allow senior undergraduates to meet with faculty members in a small group setting to explore an intellectual topic in chemistry or biochemistry. May be taken for credit up to four times, with a change in topic, and permission of the department. Prerequisites: department stamp and/or consent of the instructor.
195. Methods of Teaching Chemistry (4)
An introduction to teaching chemistry. Students are required to attend a weekly class on methods of teaching chemistry, and will teach a discussion section of one of the lower-division chemistry courses. Attendance at lecture of the lower-division course in which the student is participating is required. (P/NP grades only.) Prerequisite: consent of instructor. (F,W,S)
196. Reading and Research in Chemical Education (2 or 4)
Independent literature or classroom research by arrangement with, and under the direction of, a member of the Department of Chemistry and Biochemistry faculty. Students must register on a P/NP basis. Prerequisites: upper-division standing, 2.5 minimum GPA, consent of instructor and department.(F,W,S)
199. Reading and Research (2 or 4)
Independent literature or laboratory research by arrangement with, and under the direction of, a member of the Department of Chemistry and Biochemistry faculty. Students must register on a P/NP basis. Prerequisites: upper-division standing, 2.5 minimum GPA, consent of instructor and department. (F,W,S)
Graduate
207. Modern NMR Methods (4)
Treats varied pulse sequences, one- and two-dimensional methods, interpretation of relaxation rates, spin-decoupling, multiple quantum filtering, and solvent suppression with application to liquid crystals, membranes, small molecules, proteins, and nucleic acids. Prerequisite: does not require extensive mathematics, but recommended. (May not be offered every year.)
209. Macromolecular Recognition (4)
Structures and functions of nucleic acids, folding and catalysis of nucleic acids, motifs and domains of proteins, principles of protein-protein interactions, chemistry of protein/DNA and protein/RNA interfaces, conformational changes in macromolecular recognition. Prerequisites: biochemistry background and graduate standing, or approval of instructor.
211. Metabolic Biochemistry (4)
A comprehensive course in biochemistry emphasizing metabolic and human biochemistry. Prerequisites: physical and organic chemistry; graduate standing. (F)
213. Chemistry of Biological Macromolecules (4)
(Conjoined with Chem. 113.) A discussion of the structural principles governing biological macromolecules, the techniques used in their study, and how their functional properties depend on three-dimensional structure. Chem. 213 students will be required to complete additional course work beyond that expected of students in Chem. 113. Prerequisites: elementary physical and organic chemistry. (May not be offered every year.)
214. Molecular and Cellular Biochemistry (4)
(Conjoined with Chem. 114D.) This course represents a continuation of 114C, or an introductory course for first- and second-year graduate students, and covers topics in molecular and cellular biochemistry. Emphasis will be placed on contemporary approaches to the isolation and characterization of mammalian genes and proteins, and molecular genetic approaches to understanding eukaryotic development and human disease. Chem. 214 students will be required to complete additional course work beyond that expected of students in Chem. 114D. Prerequisite: Chem. 114A-C or consent of instructor. (May not be offered every year.)
215. Modeling Biological Macromolecules (4)
(Conjoined with Chem. 115; cross-listed with PHAR 205/BIOM 205.) Use of computer graphics and modeling methods in the study of biological macromolecules. The course will cover basic methods and techniques. The objective is to provide a good working knowledge of the critical features of the methods and to provide a foundation for further study for those who wish to pursue these methods as research topics. Chem. 215/BIOM 205/PHAR 205 students will be required to complete additional course work beyond that expected of students in Chem. 115. Prerequisite: Chem. 114A or equivalent. (May not be offered every year.)
216. Chemistry of Enzyme Catalyzed Reactions (4)
A discussion of current topics in chemical biology including mechanistic aspects of enzymes and cofactors, use of modified enzymes to alter biochemical pathways, chemical intervention in cellular processes, and natural product discovery. Prerequisite: graduate standing or consent of instructor. (May not be offered every year.)
219. Special Topics in Biochemistry (4)
This special topics course is designed for first-year graduate students in biochemistry. Topics presented in recent years have included protein processing, the chemical modification of proteins, the biosynthesis and function of glycoproteins, lipid biochemistry and membrane structure, and bioenergetics. Prerequisites: undergraduate courses in biochemistry, Chem. 114A or equivalent. (May not be offered every year.)
221. Signal Transduction (4)
The aim of this course is to develop an appreciation for a variety of topics in signal transduction. We will discuss several historical developments while the focus will be on current issues. Both experimental approaches and results will be included in our discussions. Topics may vary from year to year. Prerequisites: biochemistry and molecular biology. (May not be offered every year.)
222. Structure and Analysis of Solids (4)
(Cross-listed with MATS 227.) Key concepts in the atomic structure and bonding of solids such as metals, ceramics, and semiconductors. Symmetry operations, point groups, lattice types, space groups, simple and complex inorganic compounds, structure/property comparisons, structure determination with X-ray diffraction. Ionic, covalent, metallic bonding compared with physical properties. Atomic and molecular orbitals, bands versus bonds, free electron theory.
224. Spectroscopic Techniques (4)
Application of physical techniques to the elucidation of the structure of inorganic complex ions and organometallic compounds. Topics covered include group theory, and its application to vibrational, magnetic resonance and Raman spectroscopy. (May not be offered every year.)
225. Bioinorganic Chemistry (4)
The role of metal ions in biological systems, with emphasis on transition metal ions in enzymes that transfer electrons, bind oxygen, and fix nitrogen. Also included are metal complexes in medicine, toxicity, and metal ion storage and transport. Chem. 225 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 124. Prerequisite: Chem. 6C or 6CH. Chem. 114A and 120A recommended. (May not be offered every year.)
227. Seminar in Inorganic Chemistry (2)
Seminars presented by faculty and students on topics of current interest in inorganic chemistry, including areas such as bioinorganic, organometallic and physical-inorganic chemistry. The course is designed to promote a critical evaluation of the available data in specialized areas of inorganic chemistry. Each quarter three or four different topics will be discussed. Prerequisite: graduate standing or consent of instructor. (S/U grades only.)
228. Solid State Chemistry (4)
Survey of the chemistry of semiconductors, superconductors, molecular magnetic materials, zeolites, fast ion conductors, electronically conducting polymers and ceramics. Synethetic techniques such as molecular precursor design, the sol-gel process, electrosynthesis, and high-temperature thermolysis will be covered. (May not be offered every year.)
229. Special Topics in Inorganic Chemistry (2-4)
Selection of topics of current interest. May be repeated for credit when topics vary. (May not be offered every year.)
230. Quantum Mechanics (4)
Concepts and mathematical formalism that are useful for problems of chemical interest: states, representations, operators, eigenvalues and eigenfunctions, time evolution, observables, and measurements. Time- independent perturbation theory. Prerequisites: Chem. 133 or equivalent; Math. 20D or equivalent; Chem. 190 may be taken concurrently. (May not be offered every year.)
231. Chemical Kinetics and Molecular Reaction Dynamics (4)
Classical kinetics, transition state theory, unimolecular decomposition, potential energy surfaces; scattering processes and photodissociation processes. Prerequisite: Chem. 230. (May not be offered ever year.)
232. Statistical Mechanics of Chemical Systems (4)
Equilibrium statistical mechanics, distribution functions, and partition functions. Boltzman, Bose, and Fermi statistics. The different ensembles; ensemble averages and QM expectation values; derivation of thermodynamic properties of simple systems. Prerequisites: Chem. 131, 132 and 133, or equivalent. (May not be offered every year.)
235. Molecular Spectroscopy (4)
(Conjoined with Chem. 135.) Time-dependent behavior of systems; interaction of matter with light; selection rule. Radiative and nonradiative processes, coherent phenomena and the density matrices. Instrumentation, measurement, and interpretation. Chem. 235 students will be required to complete additional course work beyond that expected of students in Chem. 135. Prerequisites: Chem. 133 or equivalent; Math. 20D or 21D; or Chem. 190/290. (May not be offered every year.)
239. Special Topics in Chemical Physics (2 or 4)
Topics of special interest will be presented. Examples include NMR, solid-state chemistry, phase transitions, stochastic processes, scattering theory, nonequilibrium processes, tensor transformations, and advanced topics in statistical mechanics, thermodynamics, and chemical kinetics. (May not be offered every year.)
240. Electrochemistry (4)
(Cross-listed with MATS 230.) Application of electrochemical techniques to chemistry research. Basic electrochemical theory and instrumentation: the diffusion equations, controlled potential, and current methods. Electro-chemical kinetics, Butler-Volmer, Marcus-Hush theories, preparative electrochemistry, analytical electrochemistry, solid and polymer electrolytes, semiconductor photoelectrochemistry. (May not be offered every year.)
246. Kinetics and Mechanism (4)
Methodology of mechanistic organic chemistry: integration of rate expressions, determination of rate constants, transition state theory; catalysis, kinetic orders, isotope effects, substituent effects, solvent effects, linear free energy relationship; product studies, stereochemistry; reactive intermediates; rapid reactions. (May not be offered every year.)
250. Seminar in Chemistry (2)
Regularly scheduled seminars by first-year graduate students provide opportunities for practice in seminar delivery and for the exploration of topics of general interest. (S/U grades only.) (S)
251. Research Conference (2)
Group discussion of research activities and progress of the group members. Prerequisite: consent of instructor. (S/U grades only.) (F,W,S)
252. Synthetic Methods in Organic Chemistry (4)
(Conjoined with Chem. 152; formerly Chem. 248.) A survey of reactions of particular utility in the organic laboratory. Emphasis is on methods of preparation of carbon-carbon bonds and oxidation reduction sequences. Chem. 252 students will be required to complete additional course work beyond that expected of students in Chem. 152. Prerequisite: Chem. 140C.
254. Mechanisms of Organic Reactions (4)
(Conjoined with Chem. 154; formerly Chem. 247.) A qualitative approach to the mechanisms of various organic reactions; substitutions, additions, eliminations, condensations, rearrangements, oxidations, reductions, free-radical reactions, and photochemistry. Includes considerations of molecular structure and reactivity, synthetic methods, spectroscopic tools, and stereochemistry. The topics emphasized will vary from year to year. This is the first quarter of the advanced organic chemistry sequence. Chem. 254 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 154. Prerequisite: Chem. 140C or graduate standing.
255. Synthesis of Complex Molecules (4)
(Conjoined with Chem. 155; formerly Chem. 244.) This course discusses planning economic routes for the synthesis of complex organic molecules. The uses of specific reagents and protecting groups will be outlined as well as the control of stereochemistry during a synthesis. Examples will be selected from the recent literature. Chem. 255 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 155. (May not be offered every year.) Prerequisite: Chem. 152 or 252 or consent of instructor.
256. Structure and Properties of Organic Molecules (4)
(Conjoined with Chem. 156; formerly Chem. 245.) Introduction to the measurement and theoretical correlation of the physical properties of organic molecules. Topics covered include molecular geometry, molecular-orbital theory, orbital hybridization, aromaticity, chemical reactivity, stereochemistry, infrared and electronic spectra, photochemistry, and nuclear magnetic resonance. Chem. 256 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 156. Prerequisites: Chem. 140A-B-C or the equivalent.
257. Biorganic and Natural Products Chemistry (4)
(Conjoined with Chem. 157; formerly Chem. 242.) A comprehensive survey of modern bioorganic and natural products chemistry. Topics include biosynthesis of natural products, molecular recognition, and small molecule-biomolecule interactions. Chem. 257 students will be required to complete additional course work beyond that expected of students in Chem. 157. Prerequisite: Chem. 140C, 254, or consent of instructor.
258. Applied Spectroscopy (4)
(Conjoined with Chem. 158.) Intensive coverage of modern spectroscopic techniques used to determine the structure of organic molecules. Problem solving and interpretation of spectra will be strongly emphasized. Chem. 258 students will be required to write and submit a paper that reviews a recent research publication that reports the structure determination by spectroscopic methods of natural products. Prerequisite: Chem. 154 or 254 or consent of instructor.
259. Special Topics in Organic Chemistry (2-4)
(Formerly Chem. 249.) Various advanced topics in organic chemistry. Includes but is not limited to: advanced kinetics, advanced spectroscopy, computational chemistry, heterocyclic chemistry, medicinal chemistry, organotransition metal chemistry, polymers, solid-phase synthesis/combinatorial chemistry, stereochemistry, and total synthesis classics.
261. Supramolecular Coordination Chemistry (4)
(Conjoined with Chem. 161.) An introduction and survey of modern coordination chemistry. Topics will include structure and bonding of alkali, transition, lanthanide, and actinide metals, with emphasis on the first row transition metals; stereochemistry, coordination clusters, molecular solids and nanoparticles. Chem. 261 students will be required to complete additional course work beyond that expected of students in Chem. 161. Prerequisites: Chem. 120A, 120B or equivalent; or graduate standing.
262. Inorganic Chemistry and NMR (4)
A survey of inorganic chemistry to prepare for graduate research in the field, including a detailed introduction to nuclear magnetic resonance (NMR), followed by applications of NMR to structural and mechanistic problems in inorganic chemistry.
266. Environmental and Molecular Toxicology (4)
(Conjoined with Chem. 166; cross-listed with BIMM 166/BGGN 256/BIOM 266.) Molecular and cellular mechanisms underlie the actions of environmental toxicants. This course will investigate approaches to study the impact of environmental toxicants on human health. Other modern approaches that are being implemented to detect and remediate environmental toxicants will also be examined. Chem. 266 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 166. (W)
270A-B-C. Current Topics in Environmental Chemistry (2-2-2)
Seminar series on the current topics in the field of environmental chemistry. Emphasis is on current research topics in atmospheric, oceanic, and geological environments. Prerequisite: consent of instructor. (S/U grades only.) (May not be offered every year.)
271. Special Topics in Analytical Chemistry (4)
Topics of special interest in analytical chemistry. May include, but is not limited to, chemical separation, sample introductions, mass analyzers, ionization schemes, and current state-of-the-art applications in environmental and biological chemistry.
273. Atmospheric Chemistry (4)
(Conjoined with Chem. 173.) Chemical principles applied to the study of atmospheres. Atmospheric photochemistry, radical reactions, chemical lifetime determinations, acid rain, greenhouse effects, ozone cycle, and evolution are discussed. Chem. 273 students will be required to complete additional course work beyond that expected of students in Chem. 173. Prerequisites: Chem. 6A-B-C, or Chem. 6AH, 6BH and 6CH, or equivalent, or graduate standing. (S)
285. Introduction to Computational Chemistry (4)
(Conjoined with Chem. 185.) Course in computational methods building on a background in mathematics and physical chemistry. Brief introduction and background in computational theory, molecular mechanics, semi-empirical methods, and ab initio-based methods of increasing elaboration. Emphasis on applications and reliability. Chem. 285 students will be required to complete an additional paper and/or exam beyond that expected of students in Chem. 185. Prerequisites: Chem. 126 or 133 and Math. 20C. (May not be offered every year.)
294. Organic Chemistry Seminar (2)
Formal seminars or informal puzzle sessions on topics of current interest in organic chemistry, as presented by visiting lecturers, local researchers, or students. Prerequisite: advanced graduate-student standing. (S/U grades only.) (F,W,S)
295. Biochemistry Seminar (2)
Formal seminars or informal puzzle sessions on topics of current interest in biochemistry, as presented by visiting lecturers, local researchers, or students. Prerequisite: advanced graduate-student standing. (S/U grades only.)
296. Chemical Physics Seminar (2)
Formal seminars or informal sessions on topics of current interest in chemical physics as presented by visiting lecturers, local researchers, or students. Prerequisite: advanced graduate-student standing. (S/U grades only.) (F,W,S)
297. Experimental Methods in Chemistry (4)
Experimental methods and techniques involved in chemical research are introduced. Hands-on experience provides training for careers in industrial research and for future thesis research. Prerequisite: graduate-student standing. (S/U grades only.)
298. Special Study in Chemistry (1-4)
Reading and laboratory study of special topics for first-year graduate students under the direction of a faculty member. Exact subject matter to be arranged in individual cases. (S/U grades only.) Prerequisite: first-year graduate-student standing. (F,W,S)
299. Research in Chemistry (1-12)
Prerequisites: graduate-student standing and consent of instructor. (S/U grades only.) (F,W,S)
500. Teaching in Chemistry (4)
A doctoral student in chemistry is required to assist in teaching undergraduate chemistry courses. One meeting per week with instructor, one or more meetings per week with assigned class sections or laboratories, and attendance at the lecture of the undergraduate course in which he or she is participating. Prerequisites: graduate-student standing and consent of instructor. (S/U grades only.) (F,W,S)