Chemistry software ucsd

All rights reserved. Previously featured citations December 18, Chimera production release 1. Previous news Upcoming Events. More features Peroxiredoxin Wreath Peroxiredoxins are enzymes that help cells cope with stressors such as high levels of reactive oxygen species. See also the RBVI holiday card gallery. 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.

May be taken for credit two times. Independent literature or laboratory research by arrangement with, and under the direction of, a member of the Department of Chemistry and Biochemistry faculty.

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 A and introductory optics and electricity from physics. 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. Prerequisites: biochemistry background and graduate standing, or approval of instructor. 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.

This is an introductory course for graduate students and covers topics in molecular and cellular biochemistry. Prerequisites: graduate standing or consent of instructor. 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. 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.

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. Mathematical competence at the level of lower-division college courses. 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. Key concepts in the atomic structure and bonding of solids such as metals, ceramics, and semiconductors.

Ionic, covalent, metallic bonding compared with physical properties. Atomic and molecular orbitals, bands verses bonds, free electron theory. 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. 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. The role of metal ions in biological systems, with emphasis on transition metal ions in enzymes that transfer electrons, bind oxygen, and fix nitrogen.

Advanced aspects of structure and bonding in transition metal complexes with major emphasis on Molecular Orbital Theory. Other topics include computational chemistry, relativistic effects, metal-metal bonding, and reaction mechanisms.

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. 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.

Selection of topics of current interest. May be repeated for credit when topics vary. 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. 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.

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 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. Radiative and nonradiative processes, coherent phenomena and the density matrices. 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. Cross-listed with NANO 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. 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. 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.

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.

Group discussion of research activities and progress of the group members. 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. CHEM or is strongly recommended. Topics include biosynthesis of natural products, molecular recognition, and small molecule-biomolecule interactions. Problem solving and interpretation of spectra will be strongly emphasized. MAC address a. Details on the requirements can be found at: blink. There are currently three major authentication systems at UCSD.

SSO typically controls access to financial systems, but is not limited to such systems. The third, is the Network Kerberos authentication system which seems to be getting phased out. Although the UCSD proxy server still authenticates against it. Instructions for changing these passwords can be found at: blink. More Structure Drawing Programs.

No-fee option for academic and non-commercial use, but registration required to download. Several pricing options , with a free trial available. Structure editor supporting multiple file formats, for Windows, Mac and Linux.

Subjects: Biochemistry , Chemistry , Physical Sciences.