This seminar connects first-year students with the chemistry community (peers, staff, faculty, and other researchers) as they explore learning resources, study strategies, professional development, and current areas of active research. With an emphasis on academic and career planning, the series will feature guest lectures by UC San Diego faculty and staff, as well as industrial scientists and representatives from professional organizations such as the American Chemical Society (ACS). P/NP grades only.

This is a one-quarter preparatory chemistry course intended for students continuing on to general chemistry. The course will focus on the development and analysis of submicroscopic models of matter and structure-property relationships to explain, predict, and control chemical behavior. May not receive credit for both CHEM 4 and CHEM 11. Recommended: concurrent enrollment in MATH 3C, 4C or 10A or higher. Restricted to first-year and sophomore enrollment.

First quarter of a three-quarter sequence intended for science and engineering majors. Topics include atomic theory, bonding, molecular geometry, stoichiometry, and types of reactions. May not be taken for credit after CHEM 6AH. Recommended: proficiency in high school chemistry and/or physics. Corequisite: MATH 10A or 20A or prior enrollment. (F, W, S)

First quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics include quantum mechanics, molecular orbital theory, and bonding. An understanding of nomenclature, stoichiometry, and other fundamentals is assumed. Students completing 6AH may not subsequently take 6A for credit. May be taken for credit after credit for CHEM 6A. Recommended: completion of a high school physics course strongly recommended. Concurrent enrollment in MATH 20A or higher.

Second quarter of a three-quarter sequence intended for science and engineering majors. Topics include gases, liquids, and solids, thermochemistry and thermodynamics, physical and chemical equilibria, solubility. May not be taken for credit after CHEM 6BH.

Prerequisites: CHEM 6A or 6AH and MATH 10A or 20A. Recommended: concurrent or prior enrollment in MATH 10B or 20B. (F, W, S)

Second quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics include colligative properties, bulk material properties, chemical equilibrium, acids and bases, and thermodynamics. Three hour lecture and one hour recitation. May be taken for credit after credit for CHEM 6B. Students completing 6BH may not subsequently take 6B for credit.

Prerequisites: CHEM 6AH and MATH 20A. Recommended: concurrent or prior enrollment in MATH 20B.

Third quarter of a three-quarter sequence intended for science and engineering majors. Topics include kinetics, acid-base equilibria, electrochemistry, coordination chemistry, and an introduction to nuclear chemistry. May not be taken for credit after CHEM 6CH.

Prerequisites: CHEM 6B or 6BH. Recommended: completion of MATH 10B or 20B. (F, W, S)

Third quarter of a three-quarter honors sequence intended for well-prepared science and engineering majors. Topics are similar to those in 6C but are taught at a higher level and faster pace. May be taken for credit after credit for CHEM 6C. Students completing 6CH may not subsequently take 6C for credit.

Prerequisites: CHEM 6BH and MATH 20B.

Condenses a year of introductory training in analytical, inorganic, physical, and synthetic techniques into one intensive quarter. A materials fee is required. A mandatory safety exam must be passed. Students may not receive credit for both CHEM 7L and CHEM 7LM.

Prerequisites: CHEM 6B or CHEM 6BH.

Condenses a year of introductory training in analytical, inorganic, physical, and synthetic techniques into one intensive quarter. Students may not receive credit for both CHEM 7L and CHEM 7LM. A materials fee is required. A safety exam must be passed. Enrollment preference given to chemistry and biochemistry majors, followed by other science/engineering majors.

Prerequisites: CHEM 6B or CHEM 6BH. Restricted to the following major codes: CH25 , CH31, CH34 , CH35 , CH36 , CH37, CH38 .

Introduction to the material world of atoms and small inorganic molecules. Intended for nonscience majors. Students may not receive credit for both CHEM 4 and CHEM 11.

Introduction to molecular bonding and structure and chemical reactions, including organic molecules and synthetic polymers. Intended for nonscience majors. Cannot be taken for credit after any organic chemistry course.

Prerequisites: CHEM 11 or good knowledge of high school chemistry.

Introduction to biochemistry for nonscience majors. Topics include carbohydrates, lipids, amino acids and proteins, with an introduction to metabolic pathways in human physiology.

Renumbered from CHEM 140A. 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 only receive credit for one of the following: CHEM 40A, 40AH, 140A, or 140AH.

Prerequisites: CHEM 6B or CHEM 6BH.

Renumbered from CHEM 140AH. Rigorous introduction to organic chemistry, with preview of biochemistry. Bonding theory, isomerism, stereochemistry, physical properties, chemical reactivity. Students may only receive credit for one of the following: CHEM 40A, 40AH, 140A, or 140AH.

Prerequisites: B+ or higher grade in CHEM 6C or CHEM 6CH.

Renumbered from CHEM 140B. Continuation of CHEM 40A, Organic Chemistry I. Methods of analysis, chemistry of hydrocarbons, chemistry of the carbonyl group. Introduction to the reactions of biologically important molecules. Students may only receive credit for one of the following: CHEM 40B, 40BH, 140B, or 140BH.

Prerequisites: CHEM 40A or 140A (a grade of C or higher in CHEM 140A or 40A is strongly recommended).

Renumbered from CHEM 140BH. Organic chemistry course for honors-level students with a strong background in chemistry. Similar to CHEM 40B but emphasizes mechanistic aspects of reactions and effects of molecular structure on reactivity. Students may only receive credit for one of the following: CHEM 40B, 140B, 40BH, or 140BH.

Prerequisites: grade of B or higher in CHEM 40A, 40AH, 140A, or 140AH.

Renumbered from CHEM 140C. Continuation of CHEM 40A, Organic Chemistry I and CHEM 40B, Organic Chemistry II. Organic chemistry of biologically important molecules: carboxylic acids, carbohydrates, proteins, fatty acids, biopolymers, natural products. Students may only receive credit for one of the following: CHEM 40C, 40CH, 140C, or 140CH.

Prerequisites: CHEM 40B or 140B (a grade of C or higher in CHEM 40B or 140B is strongly recommended).

Renumbered from CHEM 140CH. Continuation of Organic Chemistry 40B or 40BH, at honors level. Chemistry of carboxylic acids, carbohydrates, proteins, lipids biopolymers, natural products. Emphasis on mechanistic aspects and structure reactivity relationships. Students may only receive credit for one of the following: CHEM 40C, 40CH, 140C, or 140CH.

Prerequisites: grade of B+ or higher in CHEM 40B or 140B, or B– or higher in CHEM 40BH or 140BH.

This is the first quarter of a three-quarter organic chemistry sequence intended for chemistry, biochemistry, and engineering majors and interested students. The course is a rigorous and in-depth study of fundamental organic chemistry with an introduction to chemical reactivity and synthesis, Bonding theory, structure (including isomerism, stereochemistry, conformations) and physical properties of carbon-containing molecules.

Prerequisites: CHEM 6B or CHEM 6BH.

This is the second quarter of a three-quarter organic chemistry sequence for chemistry, biochemistry, and engineering majors and interested students. The course is a rigorous and in-depth study of the properties and reactions of the major classes of organic compounds; focusing on alcohols, ethers, sulfur compounds, aromatics, organometallics, and introduction to carbonyl reactivity. Emphasis on a mechanistic understanding of reactions, the effects of molecular structure, and multi-step syntheses.

Prerequisites: CHEM 41A.

This is the third quarter of a three-quarter organic chemistry sequence intended for chemistry, biochemistry, and engineering majors and interested students. The course is a continuation of CHEM 41A and CHEM 41B with an in-depth study of the properties, synthesis, and reactions of the major classes of organic compounds. Emphasis on a mechanistic understanding of reactions, the effects of molecular structure, and multi-step syntheses.

Prerequisites: CHEM 41B.

Renumbered from CHEM 143A. Introduction to organic laboratory techniques. Separation, purification, spectroscopy, product analysis, and effects of reaction conditions. A materials fee is required. Students must pass a safety exam. Students may only receive credit for one of the following: CHEM 43A, 43AM, 143A, or 143AM.

Prerequisites: CHEM 7L or 7LM and 40A, 40AH, or 41A.

Organic chemistry laboratory for chemistry majors; nonmajors with strong background in CHEM 40A or 140A may also enroll, though preference will be given to majors. Similar to CHEM 43A, but emphasizes instrumental methods of product identification, separation, and analysis. A materials fee is required. Students must pass a safety exam. CHEM 43AM is renumbered from CHEM 143AH. Students may only receive credit for one of the following: CHEM 43AM, 143AM, 43A, or 143A.

Prerequisites: CHEM 7L or 7LM and CHEM 40A, 40AH, or 41A.

This seminar will present topics in chemistry at a level appropriate for first-year students.

(Cross-listed with EDS 31.) Explores routine challenges and exceptional difficulties students often have in learning science. Prepares students to make meaningful observations of how K–12 teachers deal with difficulties. Explores strategies that teachers may use to pose problems that stimulate students’ intellectual curiosity.

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 UC San Diego GPA, consent of instructor and department, completion of thirty units of undergraduate study at UC San Diego, completed and approved Special Studies form.

Independent study or research under the direction of a member of the faculty.

Prerequisites: student must be of first-year standing and a Regent’s Scholar; approved Special Studies form.

Laboratory course emphasizing classical quantitative chemical analysis techniques, including separation and gravimetric methods, as well as an introduction to instrumental analysis. Program or materials fees may apply.

Prerequisites: CHEM 6C or 6CH and CHEM 6BL, 7L, or 7LM. Recommended: PHYS 2CL or 2BL.

Hands-on laboratory course focuses on development of correct laboratory work habits and methodologies for the operation of modern analytical instrumentation. Gas chromatography, mass spectrometry, high performance liquid chromatography, ion chromatography, atomic absorption spectroscopy, fluorescence spectrometry, infrared spectrometry. Lecture focuses on fundamental theoretical principles, applications, and limitations of instrumentation used for qualitative and quantitative analysis. Program or materials fees may apply. Students may not receive credit for both CHEM 100B and 101.

Prerequisites: CHEM 100A and PHYS 2C or 2D and PHYS 2BL or 2CL or 2DL.

(Conjoined with CHEM 204.) Analysis of macromolecular 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, and molecular replacement.

Prerequisites: PHYS 2A and 2B.

Laboratory course in experimental physical chemistry. Program or materials fees may apply.

Prerequisites: CHEM 6CL or 100A, PHYS 2BL or 2CL or 2DL, and CHEM 126 or 126A or 126B or 127 or 130 or 131 or 133.

Laboratory course in experimental physical chemistry. Program or materials fees may apply.

Prerequisites: CHEM 105A.

The application of techniques to study protein structure and function, including electrophoresis, protein purification, column chromatography, enzyme kinetics, and immunochemistry. Students may not receive credit for CHEM 108 and BIBC 103. A materials fee may be required for this course.

Prerequisites: CHEM 43A, 143A, 43AM or 143AM, and CHEM 114A.

This laboratory will introduce students to the tools of molecular biology and will involve experiments with recombinant DNA techniques. Students may not receive credit for both CHEM 109 and BIMM 101. A materials fee may be required for this course.

Prerequisites: CHEM 43A, 143A, 43AM, or 143AM and CHEM 114A.

A chemical perspective of the origin and evolution of the biogeochemical systems of stars, elements, and planets through time. The chemical evolution of the earth, its atmosphere, and oceans, and their historical records leading to early life are discussed. The content includes search techniques for chemical traces of life on other planets.

Prerequisites: CHEM 6C or 6CH.

A discussion of the physical principles governing biomolecular structure and function. Experimental and theoretical approaches to understand protein dynamics, enzyme kinetics, and mechanisms will be covered.

Prerequisites: CHEM 40C, 40CH, 140C, or 140CH.

Introduction to biochemistry from a structural and functional viewpoint. Emphasis will be placed on the structure-functions relationships of nucleic acids, proteins, enzymes, carbohydrates, and lipids. Students may not receive credit for both CHEM 114A and BIBC 100.

Prerequisites: CHEM 40A or 41A.

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. Students may not receive credit for both CHEM 114B and BIBC 102.

Prerequisites: CHEM 40B, 40BH, or 41B and CHEM 114A.

Mechanisms of biosynthesis of macromolecules—particularly proteins and nucleic acids. Emphasis is on how these processes are controlled and integrated with metabolism of the cell. Students may not receive credit for both CHEM 114C and BIMM 100.

Prerequisites: CHEM 114A or BIBC 100.

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. May be coscheduled with CHEM 214.

Prerequisites: CHEM 114A, 114B, and 114C.

A discussion of current topics involving nucleic acid modification, including systems derived from zinc fingers, TALEs, and CRISPR-Cas9. Topics of particular emphasis include delivery of genome editing agents, gene drives, and high-throughput genetic screens. May be coscheduled with CHEM 215.

Prerequisites: CHEM 114A and 114C. Corequisite: CHEM 109.

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.

Prerequisites: CHEM 40C, 40CH, 41C, 140C, or 140CH, and CHEM 114A. (May not be offered every year.)

A survey of the biochemical action of drugs and toxins as well as their absorption and excretion.

Prerequisites: CHEM 114A.

This course discusses RNA structure and function, as well as biological pathways involving RNA-centered complexes. Emphasis will be placed on catalytic RNA mechanisms, pre-mRNA splicing, noncoding RNA biology, building blocks of RNA structure, and genome editing using RNA-protein complexes.

Prerequisites: BIMM 100 or CHEM 114C and CHEM 40C, 40CH, or 41C.

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: CHEM 6C or 6CH and CHEM 40A, 41A, or 140A.

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.

Prerequisites: CHEM 120A.

Synthesis, analysis, and physical characterization of inorganic chemical compounds. Program or materials fees may apply.

Prerequisites: CHEM 120A, 120B and 43A, 143A, 43AM or 143AH. Restricted to the following major codes: CH25 , CH31, CH34 , CH35 , CH36 , CH37.

The roles 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. May be coscheduled with CHEM 225.

Prerequisites: CHEM 114A and 120A.

Renumbered from CHEM 127. This course covers thermodynamics and kinetics of biomolecules from fundamental principles to biomolecular applications. Topics include thermodynamics, first and second laws, chemical equilibrium, solutions, kinetic theory, enzyme kinetics. Students may not receive credit for CHEM 126A and either CHEM 127, CHEM 131, or CHEM 132.

Prerequisites: CHEM 6C or 6CH, PHYS 1C or 2C or 2D, and MATH 10C or 20C.

Renumbered from CHEM 126. This course covers quantum and statistical mechanics of biomolecules. Topics include quantum mechanics, molecular structure, spectroscopy fundamentals and applications to biomolecules, optical spectroscopy, NMR, and statistical approaches to protein folding. Students may not receive credit for CHEM 126B and either CHEM 126 or CHEM 130.

Prerequisites: CHEM 126A or 127.

Renumbered from CHEM 133. With CHEM 131 and 132, CHEM 130 is part of the Physical Chemistry sequence taught over three quarters. Recommended as the first course of the sequence. Key topics covered in this course include quantum mechanics, atomic and molecular spectroscopy, and molecular structure. Students may not receive credit for CHEM 130 and either 126B, 126, or 133.

Prerequisites: CHEM 6C or 6CH, and PHYS 2C or 2D, and MATH 20D.

With CHEM 130 and 132, CHEM 131 is part of the Physical Chemistry sequence taught over three quarters. Recommended as the second course of the sequence. Key topics covered in this course include thermodynamics, chemical equilibrium, phase equilibrium, and chemistry of solutions. Students may not receive credit for CHEM 131 and either CHEM 127 or CHEM 126A.

Prerequisites: CHEM 6C or 6CH, MATH 20C, and PHYS 2C or 2D.

With CHEM 130 and 131, CHEM 132 is part of the Physical Chemistry sequence taught over three quarters. Recommended as the third course of the sequence. Key topics covered in this course include chemical statistics, kinetic theory, and reaction kinetics. Students may not receive credit for CHEM 132 and either CHEM 126A or CHEM 127.

Prerequisites: CHEM 130 or 133, and CHEM 131.

Foundations of polymeric materials. Topics: structure of polymers; mechanisms of polymer synthesis; characterization methods using calorimetric, mechanical, rheological, and X-ray-based techniques; and electronic, mechanical, and thermodynamic properties. Special classes of polymers: engineering plastics, semiconducting polymers, photoresists, and polymers for medicine. Students may not receive credit for both CENG 134, CHEM 134, or NANO 134.

Prerequisites: CHEM 6C and PHYS 2C.

Time-dependent behavior of systems; interaction of matter with light; selection rules. Radiative and nonradiative processes, coherent phenomena, and the density matrices. Instrumentation, measurement, and interpretation. May be coscheduled with CHEM 235. Prior or concurrent enrollment in CHEM 105A recommended.

Prerequisites: CHEM 126 or 126B or 130 or 133 and MATH 20D.

This course will provide an introduction to the physics and chemistry of soft matter, followed by a literature-based critical examination of several ubiquitous classes of organic nanomaterials and their technological applications. Topics include self-assembled monolayers, block copolymers, liquid crystals, photoresists, organic electronic materials, micelles and vesicles, soft lithography, organic colloids, organic nanocomposites, and applications in biomedicine and food science.

Prerequisites: CHEM 40A, 40AH, 41A, 140A, or 140AH.

The primary aim of this course is to provide an overview of fundamental facts, concepts, and methods in glycoscience. The course is structured around major themes in the field, starting from basic understanding of structure and molecular interactions of carbohydrates, to the mechanisms of their biological functions in normal and disease states, to their applications in materials science and energy generation. May be coscheduled with CHEM 242. CHEM 40C and at least one course in either general biology, molecular biology, or cell biology is strongly encouraged.

Prerequisites: CHEM 40B, 40BH, 41B, 140B, or 140BH and BIBC 100 or BILD 1 or CHEM 114A.

Continuation of CHEM 43A, 143A, 43AM, and 143AM, emphasizing synthetic methods of organic chemistry. Enrollment is limited to majors in the Department of Chemistry and Biochemistry unless space is available. A materials fee is required.

Prerequisites: CHEM 43A, 143A, 43AM or 143AM, and CHEM 40B or 140B.

Identification of unknown organic compounds by a combination of chemical and physical techniques. Enrollment is limited to majors in the Department of Chemistry and Biochemistry unless space is available. Program or materials fees may apply.

Prerequisites: CHEM 43A, 43AM, 143A, 143AM, or 143AH and CHEM 40B, 40BH, 41B, 140B, or 140BH.

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. A materials fee is required.

Prerequisites: CHEM 40C, 40CH, 41C, 140C, or 140CH and CHEM 143B.

Fundamentals of the chemistry and biochemistry of biofuel and renewable materials technologies. This course explores chemical identity and properties, metabolic pathways and engineering, refining processes, formulation, and analytical techniques related to current and future renewable products.

Prerequisites: CHEM 40B, 40BH, 41B, 140B, or 140BH.

Methodology of mechanistic organic chemistry; integration of rate expression, determination of rate constants, transition state theory; catalysis, kinetic orders, isotope effects, solvent effects, linear free energy relationship; product studies, stereochemistry; reactive intermediates; rapid reactions. May be coscheduled with CHEM 246.

Prerequisites: CHEM 40C, 40CH, or 41C.

A look at some of nature’s most intriguing molecules and the ability 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.

Prerequisites: CHEM 40A, 40AH, or 41A.

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. May be coscheduled with CHEM 252.

Prerequisites: CHEM 40C, 40CH, or 41C.

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. May be coscheduled with CHEM 254.

Prerequisites: CHEM 40C, 40CH, or 41C.

This course discusses planning economic routes for the synthesis of complex organic molecules. The uses of specific reagents to control stereochemistry will be outlined and recent examples from the primary literature will be highlighted. (May not be offered every year.) May be coscheduled with CHEM 255.

Prerequisites: CHEM 152 or 154.

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. May be coscheduled with CHEM 256.

Prerequisites: CHEM 40C, 40CH, or 41C.

A comprehensive survey of modern bioorganic and natural products chemistry. Topics will include biosynthesis of natural products, molecular recognition, and small molecule-biomolecule interactions. May be coscheduled with CHEM 257.

Prerequisites: CHEM 40C, 40CH, or 41C.

Intensive coverage of modern spectroscopic techniques used to determine the structure of organic molecules. Problem solving and interpretation of spectra will be emphasized. May be coscheduled with CHEM 258.

Prerequisites: CHEM 40C, 40CH, or 41C.

An introduction to virus structures, how they are determined, and how they facilitate the various stages of the viral life cycle from host recognition and entry to replication, assembly, release, and transmission to uninfected host cells. (May not be offered every year.) May be coscheduled with CHEM 264.

Prerequisites: BIBC 100 or CHEM 114A and BIBC 102 or CHEM 114B and BIMM 100 or CHEM 114C.

The resolution revolution in cryo-electron microscopy has made this a key technology for the high-resolution determination of structures of macromolecular complexes, organelles, and cells. The basic principles of transmission electron microscopy, modern cryo-electron microscopy, image acquisition, and 3-D reconstruction will be discussed. Examples from the research literature using this state-of-the-art technology will also be discussed.

Prerequisites: CHEM 114A or BIBC 100.

Basics of medicinal chemistry, emphasizing rigorous descriptions of receptor-protein structure, interactions, and dynamics; their implications for drug development; and an integrated treatment of pharmacodynamic and pharmacokinetic considerations in drug design. Treats computational approaches as well as practical experimental approaches.

Prerequisites: CHEM 40C, 40CH, or 41C and CHEM 114A.

Practical methods to make drugs currently in use and to design future drugs. Treats both chemical synthesis and biologics like monoclonal antibodies. Topics include fragment-based screening, solid phase synthesis, directed evolution, and bioconjugation as well as efficacy, metabolism, and toxicity.

Prerequisites: CHEM 40C, 40CH, or 41C and CHEM 114A.

An introduction to chemical concerns in nature with emphasis on atmospheric issues like air pollution, chlorofluorocarbons and the ozone hole, greenhouse effects and climate change, impacts of radioactive waste, sustainable resource usage, and risks and benefits of energy sources. Students may only receive credit for one of the following: CHEM 149A or 171.

Prerequisites: CHEM 6C or 6CH.

An introduction to chemical concerns in nature with emphasis on soil and water issues like agricultural productivity, biological impacts in the environment, deforestation, ocean desserts, natural and manmade disasters (fires, nuclear winter, volcanoes), and waste handling. Recommended preparation: CHEM 171 (formerly 149A). Students may only receive credit for one of the following: CHEM 172 or 149B.

Prerequisites: CHEM 6C or 6CH.

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. May be coscheduled with CHEM 273.

Prerequisites: CHEM 6C or 6CH.

(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. Students may not receive credit for SIO 141 and CHEM 174.

Prerequisites: CHEM 6C or 6CH.

Course in computational methods, with focus on quantum chemistry. The course content is built on a background in mathematics and physical chemistry, and provides an introduction to computational theory, ab initio methods, and semiempirical methods. The emphasis is on applications and reliability. May be coscheduled with CHEM 285.

Prerequisites: CHEM 126 or 126B or 130 or 133 and MATH 20C or 31BH. (May not be offered every year.)

Course in computational methods, with focus on molecular simulations. The course content is built on a background in mathematics and physical chemistry, and provides an introduction to computational theory and molecular mechanics. The emphasis is on applications and reliability. May be coscheduled with CHEM 286.

Prerequisites: MATH 20C and CHEM 126 or CHEM 126B or CHEM 130 or CHEM 133.

(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 or 6CH and CHEM 96 or EDS 31.

(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 actual practice.

Prerequisites: CHEM 6C or 6CH and CHEM 187 or EDS 122.

Focus on select topics from among numerous areas relevant to chemistry, including linear algebra, probability theory, group theory, complex variables, Laplace and Fourier transforms, partial differential equations, stochastic variables, random walks, and others. May be coscheduled with CHEM 290.

Prerequisites: MATH 20D.

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. P/NP grades only.

Prerequisites: department stamp and/or consent of the instructor.

Selected topics in the field of chemistry. Course will vary in title and content. Students are expected to actively participate in course discussions, read, and analyze primary literature. Current subtitles will be listed on the Schedule of Classes. May be taken for credit up to four times as topics vary. Students may not receive credit for the same topic.

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.

Prerequisites: consent of instructor.

Independent literature or discipline-based education research by arrangement with, and under the direction of, a member of the Department of Chemistry and Biochemistry faculty. P/NP grades only.

Prerequisites: upper-division standing, 2.5 minimum GPA, consent of instructor and department.

An internship program that provides work experience with public/private sector employers. Subject to the availability of positions, students will work in a local company under the supervision of a faculty member and site supervisor. P/NP grades only. May be taken for credit a maximum of three times.

Prerequisites: Completion of ninety units with a GPA of 2.5, and a completed and approved Special Studies form (UC San Diego Application for Enrollment Special Studies Courses 197, 198, 199), and department stamp.

Directed group study on a topic or in a field not included in the regular department curriculum, by arrangement with a chemistry and biochemistry faculty member. P/NP grades only. May be taken for credit two times.

Prerequisites: department approval required and a completed and approved Special Studies form (UC San Diego Application for Enrollment Special Studies Courses 197, 198, 199).

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 and the completion of the online CHEM 199 application.)

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 an appropriate analytical method. Letter grades only. Recommended preparation: background equivalent to CHEM 100A and introductory optics and electricity from physics. (W)

(Conjoined with CHEM 104.) Analysis of macromolecular 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, and molecular replacement. CHEM 204 students will be required to complete additional paper and/or exam beyond that expected of students in CHEM 104.

A broad introduction to the uses of nuclear magnetic resonance to characterize and understand proteins. Not highly mathematical, this course should be accessible to chemistry graduate students working with proteins.

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.

Overview of new systems biology “-omics” approached to lipid metabolism and cell signaling, including interrogating gene and lipid databases, techniques for lipidomics, and implications for profiling and biomarker discovery in blood and tissues relevant to inflammatory and other human diseases. Cross-listed with BIOM 209 and PHAR 208. Recommended preparation: one quarter of undergraduate biochemistry.

Structure and function of biological membranes and their lipid building blocks. Topics include lipid metabolism, membrane dynamics, protein-lipid interactions, lipid signaling, and cellular trafficking. Lectures covering fundamentals will be combined with literature-based discussions and presentations.

Prerequisites: graduate standing.

A discussion of structures of nucleic acids and proteins and their larger assemblies. The theoretical basis for nucleic acid and protein structure, as well as methods of structure determination including X-ray crystallography, cryoEM, and computational modeling approaches will be covered. Letter grades only.

Prerequisites: graduate standing.

A discussion of the physical principles governing biomolecular structure and function. Experimental and theoretical approaches to understanding protein dynamics, enzyme kinetics, and mechanisms will be covered.

This is an introductory course for 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. May be coscheduled with CHEM 114D.

Prerequisites: graduate standing.

A discussion of current topics involving nucleic acid modification, including systems derived from zinc fingers, TALEs, and CRISPR-Cas9. Topics of particular emphasis include delivery of genome editing agents, gene drives, and high-throughput genetic screens. May be coscheduled with CHEM 115.

Prerequisites: graduate standing or consent of instructor.

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.

Prerequisites: graduate standing or consent of instructor. (May not be offered every year.)

Selected topics in RNA structure and function, such as the ribosome, ribozyme, antibiotics, splicing and RNA interference, as they relate to the RNA role in gene expression and regulation. Emphasis on techniques to study the dynamics of macromolecular complexes and the mechanism of RNA catalysis.

Prerequisites: graduate standing or consent of instructor.

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.)

Various advanced topics in biochemistry. May be taken for credit up to three times as topics vary.

Various advanced topics in biochemistry. May be taken for credit up to three times as topics vary.

Modulation cellular activity and influencing viral fate involve regulatory circuits. Emergent properties include dose response, cross regulation, dynamic, and stochastic behaviors. This course reviews underlying mechanisms and involves mathematical modeling using personal computer tools. Recommended: some background in biochemistry and/or cellular biology. Mathematical competence at the level of lower-division college courses.

(Cross-listed with BGGN 230.) 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.)

(Cross-listed with MATS 227, NANO 227, and MAE 251.) 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 verses bonds, free electron theory. Students may only receive credit for one of the following: CHEM 222, MAE 251, MATS 227, or NANO 227.

A survey of this field from a synthetic and mechanistic viewpoint. Fundamental reactivity patterns for transition element organometallic compounds will be discussed and organized according to periodic trends. Transition metal catalyzed reactions of importance to organic synthesis and industrial chemistry will be presented from a mechanistic perspective. Letter grades only.

Prerequisites: graduate standing.

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.)

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. May be coscheduled with CHEM 125.

Prerequisites: graduate standing.

Advanced aspects of structure and bonding in transition metal complexes with major emphasis on Molecular Orbital Theory. Electronic structure descriptions are used to rationalize structure/reactivity relationships. Other topics include computational chemistry, relativistic effects, metal-metal bonding, and reaction mechanisms.

Prerequisites: graduate standing or consent of instructor.

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. (S/U grades only.)

Prerequisites: graduate standing or consent of instructor.

Survey of the chemistry of semiconductors, superconductors, molecular magnetic materials, zeolites, fast ion conductors, electronically conducting polymers and ceramics. Synthetic techniques such as molecular precursor design, the sol-gel process, electrosynthesis, and high-temperature thermolysis will be covered. (May not be offered every year.)

Selection of topics of current interest. May be repeated for credit when topics vary. (May not be offered every year.)

Theoretical basis of quantum mechanics; postulates; wave packets; matrix representations; ladder operators; exact solutions for bound states in 1, 2, or 3 dimensions; angular momentum; spin; variational approximations; description of real one and two electron systems. Recommended background: CHEM 133 and MATH 20D or their equivalents.

Continuation of theoretical quantum mechanics: evolution operators and time dependent representations, second quantization, Born-Oppenheimer approximation, electronic structure methods, selected topics from among density operators, quantized radiation fields, path integral methods, scattering theory.

Prerequisites: CHEM 230A or consent of instructor.

Classical kinetics, transition state theory, unimolecular decomposition, potential energy surfaces; scattering processes and photodissociation processes. (May not be offered ever year.)

Derivation of thermodynamics from atomic descriptions. Ensembles, fluctuations, classical (Boltzmann) and quantum (Fermi-Dirac and Bose-Einstein) statistics, partition functions, phase space, Liouville equation, chemical equilibrium, applications to weakly interacting systems, such as ideal gases, ideal crystals, radiation fields. Recommended background: CHEM 132 or its equivalent. Classical and quantum mechanics, thermodynamics, and mathematical methods will be reviewed as needed, but some background will be necessary.

Interacting systems at equilibrium, both classical (liquids) and quantum (spins). Phase transitions. Nonequilibrium systems: glasses, transport, time correlation functions, Onsager relations, fluctuation-dissipation theorem, random walks, Brownian motion. Applications in biophysics.

Prerequisites: CHEM 232A or consent of instructor.

Fundamentals of photochemistry and photophysics are treated in this course. Excited-state processes for a variety of molecular systems are explored, with emphasis on organic systems. Relevant topics in spectroscopy and kinetics are included. Recommended preparation: course work in physical chemistry.

Time-dependent behavior of systems; interaction of matter with light; selection rules. Radiative and nonradiative processes, coherent phenomena and the density matrices. Instrumentation, measurement, and interpretation.

Prerequisites: graduate standing or consent of instructor. (May not be offered every year.)

Explore physical and analytical chemistry of surfaces. Topics include chemisorption and physisorption, sticking probabilities, adsorption isotherms, and passivation of semiconductors.

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.)

(Cross-listed with NANO 255.) 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.)

(Cross-listed with NANO 241.) This course will provide an introduction to the physics and chemistry of soft matter, followed by a literature-based critical examination of several ubiquitous classes of organic nanomaterials and their technological applications. Topics include self-assembled monolayers, block copolymers, liquid crystals, photoresists, organic electronic materials, micelles and vesicles, soft lithography, organic colloids, organic nanocomposites, and applications in biomedicine and food science.

The primary aim of this course is to provide an overview of fundamental facts, concepts, and methods in glycoscience. The course is structured around major themes in the field starting from the basic understanding of structure and molecular interactions of carbohydrates, to the mechanisms of their biological functions in normal and disease states, to their applications in materials science and energy generation. This course is geared to introduce students with limited prior exposure to the field, supported by selected readings and class notes. May be coscheduled with CHEM 142. Recommended preparation: undergraduate-level organic chemistry and at least one previous course in either general biology, molecular biology, or cell biology is strongly encouraged.

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.)

Course offers training in responsible conduct of research in chemistry and biochemistry, as well as presentation skills, teamwork, and other survival skills for a career in research. Objectives include learning rules, issues, and resources for research ethics; and understanding the value of ethical decision-making. The course is designed to meet federal grant requirements for training in the responsible conduct of research.

Prerequisites: graduate standing.

Group discussion of research activities and progress of the group members. (S/U grades only.)

Prerequisites: consent of instructor.

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. May be coscheduled with CHEM 152.

Prerequisites: graduate standing.

The course focuses on the discovery and development of modern antibiotics. We will discuss the discovery, synthesis, medicinal chemistry, mechanism of action studies, and preclinical as well as clinical development of drugs that are currently being used in the therapy of bacterial infections. Emphasis will be given to compounds approved over the last three decades and investigational drugs that are in clinical trials.

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. May be coscheduled with CHEM 154.

Prerequisites: graduate standing.

This course discusses planning economic routes for the synthesis of complex organic molecules. The uses of specific reagents to control stereochemistry will be outlined and recent examples from the primary literature will be highlighted. (May not be offered every year.) May be coscheduled with CHEM 155.

Prerequisites: graduate standing. CHEM 252 or 254 is strongly recommended.

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. May be coscheduled with CHEM 156.

Prerequisites: graduate standing.

A comprehensive survey of modern bioorganic and natural products chemistry. Topics include biosynthesis of natural products, molecular recognition, and small molecule-biomolecule interactions. May be coscheduled with CHEM 157.

Prerequisites: graduate standing.

Intensive coverage of modern spectroscopic techniques used to determine the structure of organic molecules. Problem solving and interpretation of spectra will be strongly emphasized. 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. May be coscheduled with CHEM 158.

Prerequisites: graduate standing.

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.

Students will review basic principles of light and electron microscopy and learn a variety of basic and advanced microscopy methods through lecture and hands-on training. Each student will have his or her own project. Additional supervised instrument time is available.

Prerequisites: consent of instructor.

A survey of the fundamentals of single-crystal X-ray diffraction for the purpose of collecting and refining structural information on molecular solids and related materials. Course covers basics of X-ray diffraction, instrumentation for diffraction data collection, crystalline habits and space group symmetry and introduction to the software required for data acquisition, structure solution, refinement.

Prerequisites: graduate standing or consent of instructor.

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.

An introduction of virus structures, how they are determined, and how they facilitate the various stages of the viral life cycle from host recognition and entry to replication, assembly, release, and transmission to uninfected host cells. Students will be required to complete a term paper. (May not be offered every year.) May be coscheduled with CHEM 164. Recommended: elementary biochemistry as treated in CHEM 114A or BIBC 100 and a basic course in cell biology or consent of the instructor.

The resolution revolution in cryo-electron microscopy has made this a key technology for the high-resolution determination of structures of macromolecular complexes, organelles, and cells. The basic principles of transmission electron microscopy, modern cryo-electron microscopy, image acquisition, and 3-D reconstruction will be discussed. Examples from the research literature using this state-of-the-art technology will also be discussed. May be coscheduled with CHEM 165. Students may not receive credit for BGGN 262 and CHEM 265.

Prerequisites: graduate standing. (May not be offered every year.)

This course explores the potential impacts of nanoscience and nanotechnology on environmental processes and human health as well as the sustainable design, development, and use of nanotechnologies. The course addresses questions and issues arising from the expected increases in the development of nanotechnology-based consumer products and their potential effects on the environment. Students may not receive credit for CHEM 276 and NANO 267.

Prerequisites: graduate standing.

Seminar series on the current topics in the field of environmental chemistry. Emphasis is on current research topics in atmospheric, oceanic, and geological environments.

Prerequisites: consent of instructor. (S/U grades only.) (May not be offered every year.)

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.

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. May be coscheduled with CHEM 173.

Prerequisites: graduate standing.

(Cross-listed with BENG 276.) Introduces mathematical tools to simulate biological processes at multiple scales. Numerical methods for ordinary and partial differential equations (deterministic and stochastic), and methods for parallel computing and visualization. Hands-on use of computers emphasized; students will apply numerical methods in individual projects.

Prerequisites: consent of instructor.

Publicly available databases and bioinformatics tools are now an indispensable component of biomedical research. This course offers an introductory survey of selected tools and databases; the underlying concepts, the software, and advice on using them. Practical exercises will be included.

A laboratory course combining hands-on mass spectrometry and bioinformatics tools to explore the relationship between structure and function in macromolecules. Tools for peptide sequencing, analysis of post-translational modification, and fragmentation analysis by mass spectrometry are examples of experiments students will run.

Prerequisites: consent of instructor.

Course in computational methods, with focus on quantum chemistry. The course content is built on a background in mathematics and physical chemistry, and provides an introduction to computational theory, ab initio methods, and semiempirical methods. The emphasis is on applications and reliability. May be coscheduled with CHEM 185.

Prerequisites: graduate student standing.

Course in computational methods, with focus on molecular simulations. The course content is built on a background in mathematics and physical chemistry and provides an introduction to computational theory and molecular mechanics. The emphasis is on applications and reliability. May be coscheduled with CHEM 186.

Prerequisites: graduate standing.

Focus on select topics from among numerous areas relevant to chemistry, including linear algebra, probability theory, group theory, complex variables, Laplace and Fourier transforms, partial differential equations, stochastic variables, random walks, and others. May be coscheduled with CHEM 190.

Prerequisites: graduate standing.

This course has two components. First, students supported or affiliated with the Molecular Biophysics Training Program present seminars on their original research. Students generally present to an audience of their peers and training program faculty. Second, students present a critical analysis of a paper from the current literature and discuss aspects of research design, rigor, and reproducibility including whether the statistical analysis is appropriate. May be taken for credit up to six times.

Prerequisites: graduate standing and department approval required. This course is only open for students supported or affiliated with the Molecular Biophysics Training Program.

Formal seminars or informal puzzle sessions on topics of current interest in organic chemistry, as presented by visiting lecturers, local researchers, or students. (S/U grades only.)

Prerequisites: advanced graduate-student standing.

Formal seminars or informal puzzle sessions on topics of current interest in biochemistry, as presented by visiting lecturers, local researchers, or students. (S/U grades only.)

Prerequisites: advanced graduate-student standing.

Formal seminars or informal sessions on topics of current interest in chemical physics as presented by visiting lecturers, local researchers, or students. (S/U grades only.)

Prerequisites: advanced graduate-student standing.

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. (S/U grades only.)

Prerequisites: graduate-student standing.

An introduction to specific scientific research areas, experimental design, and techniques in contemporary research through independent, original projects under the direction or guidance of individual faculty members. May be taken for credit up to four times for a maximum of sixteen units. (S/U grades only.)

Prerequisites: first-year graduate-student standing.

Prerequisites: graduate-student standing and consent of instructor. (S/U grades only.)

Under the supervision and mentorship of a course instructor, MS and PhD students serve as teaching assistants to undergraduate laboratory and lecture courses. To support teaching competency, regular meetings with the instructor and attendance at lectures are required. S/U grades only. May be taken for credit twelve times.

Prerequisites: graduate-student standing and consent of instructor.

This course explores teaching strategies specific to chemistry at the college level, and promotes the development of skills for facilitating active, student-centered learning in both lecture and laboratory settings. It is required for first-time teaching assistants. S/U grades only.

Prerequisites: graduate-student standing and consent of instructor.