Search results for "index" ( 98 records found )

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 01. Introduction to Chemical Biology -- Introduction/What is Chemical Biology?
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 8, 2013.

Index of Topics:
0:01:12 - Week 1 Overview
0:02:00 - Tuesday's Announcements-Reading and Homework
0:05:46 - What Merits Your Attention
0:09:47 - Course Instructors
0:15:47 - Textbook
0:19:26 - Discussion Sections
0:20:23 - Course Structure
0:24:06 - Grade Calculation
0:25:50 - Tour of the Course Website
0:28:36 - Academic Honesty
0:30:06 - Caution and Responsibility
0:30:30 - What is Chemical Biology?
0:32:20 - Chemical Biology Advances both Chemistry and Biology
0:35:46 - Using Chemistry to Drive Biology
0:38:28 - Evolution underlies Chemical Biology
0:40:44 - Evolution contributes to Chemical Biology
0:42:01 - The Central Dogma of Modern Biology
0:46:54 - What is in a gene?
0:49:03 - The Smallest Gene
0:52:40 - Microcin A is Still Rather Complex
0:53:31 - What is a Genome?
0:54:56 - The Complete Genome Sequence is Just a Start
0:56:30 - Big Differences in Genomes, Same Species
0:57:43 - Similarities and Differences Between Prokaryotic and Eukaryotic Organism
0:58:53 - Nearly Identical Genomes, Very Different People
0:59:14 - Identical Genomes, Different Cells
1:00:33 - Inside a Human Cell
1:00:52 - The Transcriptome
1:02:07 - RNA Splicing Amplifies the Diversity of the Genome
1:03:04 - The Proteome
1:05:30 - Post-Translational Modification Amplifies the Diversity of the Proteome
1:08:06 - Post-Translational Processes
1:09:58 - Combinatorial Assembly Generates Diversity
1:12:51 - How to Calculate Diversity
1:16:40 - Modular Architecture Allows Combinatorial Synthesis

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 02. Introduction to Chemical Biology --Common Tools in Chemical Biology
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 10, 2013.

Index of Topics:
Announcements
0:00:49 - Week 1 Overview
0:02:15 - Tuesday's Announcements (Reading and Homework)
0:02:22 - Course Instructors
0:03:11 - Our Story Thus Far...(Thursday)
0:10:06 - To Do the Proposal Assignment Successfully
0:15:15 - Next Week's Plan

Lecture
0:18:39 - Modular Architecture Allows Combinatorial Synthesis
0:22:23 - Diversity in Biology
0:27:26 - Antibodies Assembled by combinatorial Biosynthesis
0:30:40 - Common Tools in Chemical Biology
0:33:18 - Good Experiments Have Both Positive and Negative Controls
0:40:26 - Example: Amplifying DNA with PCR
0:43:53 - Colormetric Indicators
0:47:04 - Fluorophores Allow Visualization of Molecules Inside the Cell
0:52:24 - Assays to Detect Molecules in Solution and Cells
0:55:24 - Cellular Assays for Particular Conditions
0:58:41 - Viruses for Gene Delivery
0:59:21 - Phage Display for Selecting From Vast Libraries of Proteins
1:02:18 - Phage-Displayed Protein Libraries
1:04:33 - Cellular Assays for Particular Conditions (revisited)
1:04:55 - Vast Libraries of DNA and RNA
1:07:09 - Small Molecules Provide Control Over Cell Processes
1:10:26 - Model Organisms for Biology and Chemistry
1:12:00 - M13: Filamentous Bacteriophage
1:12:49- Relative Sizes
1:13:41 - Bacteria Used to Define DNA as Responsible for Transferring Heredity
1:15:15 - Baker's Yeast
1:15:32 - Fruit Fly (Drosophilia)
1:15:54 - Chemical & Behavioral Studies in Drosophila: The Inebriometer

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 03. Introduction to Chemical Biology -- Reactivity and Arrow Pushing
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 3, 2013.

Index of Topics:  
Announcements
0:00:14- Week 2 Synopsis
0:04:00- Announcements

Lecture
0:05:29- Our Story to Date on Tuesday...
0:07:01- What is Life?
0:09:07- Arrows Depict the Overlap of Molecular Orbitals
0:14:33- The Clash of Two Possible Wills
0:17:16- Arrows Depict the Overlap of Molecular Orbitals
0:19:57- The Three Components of Orbital Overlap
0:21:35- Arrows Depict the Overlap of Molecular Orbitals (revisited)
0:21:53- The Three Components of Orbital Overlap (revisited)
0:24:27- Charge-Charge or Coulombic Effects
0:26:31- Molecular Orbital Theory Explains the Otherwise Unexplained
0:28:05- Combining Atomic Orbitals to Make Hybrid Atomic Orbitals
0:34:17- Combining Hybrid Atomic Orbitals to Make Molecular Orbitals
0:39:56- Highest Occupied Molecular Orbital
0:41:57- Lowest Unoccupied Molecular Orbitals (LUMOs)
0:44:08- Anatomy of an Arrow
0:46:38- 3 Rules for Mechanistic Arrow-Pushing
0:50:34- The Rules for Arrow Pushing in Action
0:57:02- Draw Correct Lewis Structures
0:58:23- Arrows Start With Bonds or Lone Bairs
1:00:08- Arrows End on Atoms or Bonds
1:01:27- H Is Always Attached to Something
1:04:48- Hydrogen Bonds
1:07:08- Do Not Use Curved Arrows for Hydrogen Bonds
1:08:58- Proton Transfers To and From Heteroatoms are Very Fast
1:09:33- Proton Transfers Require Linear Geometries

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 04. Introduction to Chemical Biology -- Combinatorial Chemistry and Biology
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 17, 2013.

Index of Topics:
Announcements
0:00:58- Week 2 Overview
0:03:19- Announcements
0:05:04- Journal Article Report Example

Lecture:
0:28:06- Our Story To Date on Thursday
0:32:32- Do Not Use Curved Arrows for Hydrogen Bonds
0:34:00- The Molecules of Life on Earth
0:34:50- Ingredients in the Recipe of Life
0:36:32- Building the Building Blocks of Life
0:37:40- Chemistry of HCN
0:39:06- HCN=The Chemistry of Life
0:39:50- White Board Example
0:50:27- Formation of DAMN
0:50:40- Formation of AICN
0:53:32- Prebiotic Sythesis of Pyrimidine
0:54:57- Prebiotic Synthesis of D-Ribose from CH2O
0:55:50- The Benzoin Reaction
0:56:40- White Board Example or Ribose Rings
1:05:28- Prebiotic Synthesis of D-Ribose from CH2O
1:06:29- Oligomers of Nucleotide Subunits
1:08:00- The RNA World
1:09:19- Prebiotic Synthesis of Amino Acids
1:10:27- Strecker Synthesis of Amino Acids
1:11:10- Formation of Proteins from Amino Acids
1:11:29- Non-Covalent Interactions Control All Biology
1:12:35- Non-Covalent Interactions Dominate Biology
1:13:21- A Spectrum of Bonding
1:14:34- Non-Covalent Bonding Equation
1:16:35- Charge-Charge Interactions
1:18:19- Caution! Formal Charges are Not the Same as Partial Charges

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 05. Introduction to Chemical Biology --Non-Covalent Interactions, DNA.
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 22, 2013.

Index of Topics:
Announcements
0:01:16- Week 3 Overview
0:02:48- Announcements
0:06:14- Office Hours
0:08:50- Midterm 1 Info

Lecture
0:10:56- Our Story Thus Far (Thursday)
0:10:58- Charge-Charge Interactions
0:11:11- The Lennard-Jones Potential
0:14:28- Rouges Gallery of Non-Covalent Interactions
0:21:44- Comparing Energetics
0:25:06- All Biology Involves Water
0:26:40- Water next to Hydrophobic Surfaces
0:28:36- Receptor-Ligand Interactions
0:33:01- Biooligomers on Earth: Modularity
0:33:48- Numerical Amplification in Biosynthesis
0:34:35- Form Follows Function in Biology
0:39:51- Non-Covalent Bonding Summary
0:43:31- Structure of DNA: Double Helix
0:44:57- Structure of DNA: Double Helix, Slide 2
0:46:24- DNA Structure Sets Up Replication
0:47:42- Early Attempts at Deciphering the Structure of DNA
0:48:31- DNA Inside the Cell is Tightly Organized
0:49:02- The DNA Bases
0:51:39- DNA Bases: Not That Basic
0:52:40- The Missing 2-OH of DNA Confers Stability
0:54:24- White Board Example
0:59:25- The DNA Bases are Subject to Modification
1:01:39- Watson-Crick Base Pairs form U-Shape
1:02:35- The Edges of the DNA Bases Provide a Basis for Molecular Recognition
1:04:02- Transcription Factors Recognize Specific DNA Sequences
1:04:59- Forces Holding Together DNA Double Helix
1:06:28- Base Pairing Requires Hydrogen Bond Donors and Acceptors
1:08:36- Unnatural Bases Can Shift Recognition
1:10:27- Chemical Biologists Synthesized DNA With Unnatural Bases
1:12:32- Stabilization of DNA by Pi-Stacking
1:12:52- Alternative Base Pairing Also Possible
1:14:13- DNA Intercalation: Untwisting of DNA
1:14:56- Examples of DNA Intercalators
1:17:03- More DNA Intercalators

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 06. Introduction to Chemical Biology -- DNA Reactivity with Small Molecules
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on January 24, 2013.

Index of Topics:
Lecture
0:01:13- Week 3 Overview
0:01:53- Examples of DNA Intercalators
0:04:21- How to Measure and Calculate the Strength of DNA Hybridization
0:07:22- DNA Self-Assembly Based on Sequence
0:07:51- Hybridization of DNA
0:09:20- Short Stretches of DNA & RNA Can Also Fold
0:10:31- DNA is Wound Into Supercoils
0:11:57- Would the Real DNA Structure Please Stand Up?
0:12:42- Storing 1.7m of DNA compactly
0:13:44- Needed: DNA Gyrase to Untangle the DNA
0:15:53- Bacterial DNA is Stored in Plasmids
0:18:29- Antibiotics as Selection Markers
0:22:24- Eukaryotic DNA is Wrapped Around Nucleosomes
0:22:41- Covalent Modification of Histone Tails
0:23:50- Modifications to the Lysine Sidechains of Histones
0:27:24- Trapoxin as a Highly Specific HDCA-1 Inhibitor
0:28:49- Biological Polynucleotide Synthesis
0:32:07- DNA Polymerases Require a Template and Lengthen An Existing Strand
0:34:36- DNA Polymerases Require, Slide 2
0:39:20- DNA Polymerase and Reverse Transcriptase
0:42:10- DNA Polymerase: Dream Machine!
0:42:34- DNA Polymerase: Dream Machine! Slide 2
0:43:04- DNA Polymerase: Dream Machine! Slide 3
0:43:11- DNA Polymerase: Dream Machine! Slide 4
0:43:38- DNA Polymerase for Amplification of PCR
0:46:41- DNA Polymerase Summary
0:46:57- RT Inhibitors
0:49:16- White Board Example
0:50:08- RT Inhibitors (revisited)
0:52:15- A Brief History of Chemical DNA Synthesis
0:54:19- DNA Synthesis by Repeating Cycles
0:54:22- Chemical DNA Synthesis
0:56:22- DNA Synthesis on Solid Support
0:57:01- The DNA Microarray
0:57:22- Comparing Two States with Microarrays
0:57:25- DNA MicroArrays Can Monitor Transcription of Thousands of Genes Simultaneously
0:58:53- The DNA Microarray (revisited)
0:59:04- Comparing Two States with Microarrays (revisited)
1:00:06- DNA Microarrays Can Monitor Transcription of Thousands of Genes Simultaneously (revisited)
1:00:54- Small Molecule Fingerprinting with DNA Microarrays
1:02:09- FK506 Fingerprinting
1:03:58- Analysis of DNA sizes by electrophoresis
1:06:06- Example of DNA Agarose Gels
1:07:00- Visualizing DNA in Gels
1:07:12- Separating DNA by Capillary Electrophoresis
1:07:55- DNA Sequencing Uses DNA Synthesis
1:10:37- DNA Biotechnology
1:11:19- Modifying DNA: Random and Directed

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 07. Introduction to Chemical Biology -- DNA, RNA, and Cancer
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded January 29, 2013.

Index of Topics:
Announcements
0:00:09- Week 3 Overview
0:01:28- Office Hours
0:02:51- Midterm 1 Info
0:06:24- Announcements

Lecture
0:06:40- Our Story Thus Far
0:06:40- Cutting and Pasting DNA
0:12:22- Restriction Enzymes Cut DNA Specifically
0:15:00- "Sticky Ends" Left Over from Restriction Enzymes for Pasting in New DNA
0:16:29- Cutting and Pasting DNA
0:18:42- Protein Modification by PCR
0:23:15- UV from Sunlight Cross-Links Thymines
0:25:09- E. Coli Photolyase
0:26:36- Protecting Your Cells By Sun Screen
0:28:39- Psoralens: The Scourge of Margaritaville
0:30:58- Psoralen Cross-Linked DNA
0:32:16- Margarita Photodermatitis (image)
0:33:06- Margarita Photodermatitis
0:33:24- Cells Must Advance or Die
0:34:57- DNA as a Big Nucleophile
0:38:26- Case Study: Omaha, Nebraska-Sept. 10, 1978
0:39:51- N-nitrosoamines = Potent DNA Alkylating Agents
0:41:13- The First Human Trials of N,N-Dimethylnitorsoamine
0:42:40- Bringing Home the Bacon
0:43:37- Why Bacon's (Mostly) Ok
0:45:00- Known Carcinogens
0:47:44- Paradox: Cause and Cure??
0:50:42- Excision Repair in Humans
0:52:34- Monofunctional Alkylating Agents: Often Readily Repairable
0:54:23- Bifunctional Cross-Linking Agent
0:54:58- Caution! Bifunctional DNA Alkylators
0:55:47- Excision Repair In Humans
0:56:46- Missing Or Deficient DNA Repair Proteins
0:57:25- Hundreds of Mutations Required to Cause Cancer
1:00:39- The p53 Tumor Suppressor Protein
1:02:05- Mutations to p53 are Bad News
1:02:52- p53 Suppressors Tumors
1:03:57- Sir Percival Pott
1:05:19- Testicular Cancer
1:06:13- Testicular Cancer, Slide 2
1:06:56- P450 Substrates as Potent DNA Alkylators
1:08:24- Benzopyrene: Pro-Epoxide DNA Alkylators
1:10:18- Toxins from Molds Growing on Grains
1:11:36- Nitrogen and Sulfur Mustards
1:13:35- The Re-Evaluation of RNA's Importance
1:14:41- What Levene Got Right
1:15:07- The Re-Evaluation of RNA's Importance
1:15:53- RNA: Soldier, Sailor, Tinker, Spy

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 08. Introduction to Chemical Biology -- RNA
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on February 5, 2013.

Index of Topics:
Announcements
0:00:21- Announcements
0:01:24- Midterm 1 Results
0:03:24- Office Hours
0:04:28- Getting Strong Letters of Recommendation
0:15:10- Getting Strong Letters of Recommendation from Prof. Weiss

Lecture
0:18:00- Our Story Thus Far
0:21:00- RNA: Soldier, Sailor, Tinker, Spy
0:22:40- Differences Between RNA and DNA
0:23:25- RNA Hydrolysis
0:24:29- The Ubiquitous RNases
0:27:27- RNase Mechanism of Action
0:30:38- How to Shut Down a Very Effective Enzyme
0:33:25- The 5-methyl Group of Thymine Provides a Chemical Code for DNA
0:36:35- RNA Bases can be Modified
0:38:14- RNA Adopts Globular Structures
0:40:14- Systemizing Structure in RNA
0:43:56- Canonical RNA Secondary Structures
0:45:46- Systemizing Structure in RNA (revisited)
0:46:20- RNA Polymerase Catalyzes mRNA synthesis
0:48:34- RNA Polymerase
0:50:40- DNA Primase Provides the RNA Primers for DNA Replication
0:52:01- DNA Primase Synthesizes a Primer for RNA Polymerase
0:52:27- Transcription in Action
0:54:01- Examples of Protein DNA Interactions
0:55:56- Giddayap! TATA Binding Protein Rides the DNA Double Helix
0:57:19- RNA Transcription Shut Off By Repressors
0:59:16- Recognition of DNA by transcription factors
1:05:49- Zinc Finger Transcription Factors
1:08:36- Engrailed Transcription Factor
1:10:27- Leucine Zipper Transcription Factor
1:11:12- Complexity in Activating DNA Transcription
1:11:59- Small Molecule Control Over Gene Transcription
1:15:32- The Yeast Two-Hybrid System Allows in Cell Testing for Binding
1:16:49- The Yeast Two Hybrid System
1:17:53- Comparing Bacterial and Eukaryotic mRNA Processing

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 09. Introduction to Chemical Biology -- RNA -- Part 2
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded on February 7, 2013.

Index of Topics:
Announcements
0:00:08- Week 5 Overview
0:01:44- Announcements
0:01:50- Office Hours
0:02:09- Important Book Report Announcements
0:07:49- Scientific Writing
0:12:16- Plagiarism

Lecture
0:21:06- Our Story Thus Far on Thursday
0:25:41- RNA: Soldier, Sailor, Tinker, Spy
0:26:04- Comparing Bacterial and Eukaryotic mRNA Processing
0:27:05- mRNA Processing in Human Cells
0:28:40- mRNA Capping in Eukaryotic Cells
0:29:08- GTP Cap Methylation
0:30:30- Using PolyA tails to Isolate mRNA
0:34:29- Eukaryotic Splicing of mRNAs
0:35:25- Self-Splicing by Some RNA Introns
0:37:38- RNA Degradation Plays a Major Role
0:40:40- Therapeutic Anti-Sense
0:42:32- Modifying the Oligo Backbone
0:44:20- RNA Interference Used Extensively in the Lab
0:47:57- Where Peptide Synthesis Starts
0:49:13- Formation of Peptides by Aminolysis
0:52:49- The Ribosome Catalyzes Peptide Bond Formation
0:53:46- Tetracycline Blocks the Ribosome
0:54:51- Antibiotics Targeting Ribosome and Protein Translation Machinery
0:56:36- Translation Starts with the Start Codon
0:57:19- tRNAs Bring Amino Acids to the Ribosome
0:58:26- The Genetic Code: The Language of the Codons
1:00:33- Decoding the DNA to Protein Sequence
1:01:43- How to Load the Amino Acyl tRNA
1:03:50- Need to Activate the Amino Acid for Loading on the tRNA
1:06:38- Post-Translational Modification of the N-Terminus
1:07:25- Inhibiting Methionine Aminopeptidase
1:09:59- Binding to mRNA Provides Further Regulation of Translation
1:10:59- Incorporating Unnatural Amino Acids
1:12:38- Expanding the Protein Palette
1:13:48- mRNA Aptamer Libraries
1:18:18- Puromycin Allows Covalent Linkage to the Growing Peptide During Translation

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 10. Introduction to Chemical Biology -- Proteins and Amino Acid Conformations -- Part 1
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded February 12, 2013.

Index of Topics:
Announcements
0:00:08- Week 6 Overview
0:01:07- Announcements
0:02:42- Office Hours
0:03:54- Careers in Chemical Biology and Health (white board)

Lecture
0:19:40- Our Story Thus Far
0:22:14- Proteins: Of Primary Importance
0:23:33- Must Memorize: 20 aa's, Structures and Abbreviations
0:24:50- Must Memorize, Slide 2
0:26:31- Refer to Amino Acids
0:27:24- Goal: Understand Forces Behind Protein Structure
0:28:38- Peptides and Protein are Directional
0:32:39- Useful to Know: pKa Values
0:35:14- Amino Acid Sidechains Dictate Protein Folding and Protein-Protein Interactions
0:37:09- Amino Acid Sidechains, Slide 2
0:40:09- A Close Look at a Protein-Protein Interface
0:42:05- Peptides Can Make Effective Drugs
0:45:20- Peptides Can Be the Lead Compounds for Drug Discovery
0:49:29- Chemical Synthesis of Peptides and Proteins
0:54:41- Synthesizing Longer Proteins with Native Chemical Ligation
0:59:51- Protein Splicing to Remove Inteins
1:01:18- Protein Splicing to Remove Inteins, Slide 2
1:04:31- Protein Structure: The Sum of Lots of Little Forces
1:06:30- Geometry of the Hydrogen Bond
1:07:46- H-Bonds in Proteins
1:09:50- H-Bonds in a-Helices
1:15:10- a-Helices Form a Dipole
1:18:27- a-Helices Form a Dipole, Slide 2

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 11. Introduction to Chemical Biology -- Proteins and Amino Acid Conformations -- Part 2
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded February 14, 2013.

Index of Topics:
Announcements
0:00:06- Week 6 Overview
0:00:30- Announcements
0:01:41- Office Hours
0:02:49- Proposal Abstract (white board)

Lecture
0:28:13- Our Story Thus Far on Thursday
0:30:53- a-Helices Form a Dipole
0:31:09- B-Sheets Come In Two Flavors
0:32:54- Forming B-Sheets Into Barrels
0:33:58- B-Sheets Come In Two Flavors, Slide 2
0:34:39- Secondary Structure- Backbone Conformations
0:35:32- Sidechains in B-Sheets Stick Out Perpendicular to the Sheet
0:36:53- Turns Have Minimal H-Bonds
0:40:26- Turn Structures
0:40:59- Can (modestly) Predict Secondary Structure Based on Amino Acid
0:44:40- Conformational Analysis for the Cognoscente (white board)
0:58:07- Amino Acids Examples (white board)
1:05:01- Conformations to Watch For
1:08:19- Conformations to Watch For, Slide 2
1:09:38- Allylic Strain Dominates the Protein Backbone
1:11:19- Allylic Strain Explains Dominance of 2 Types of Protein Secondary Structure
1:13:10- Disulfide Bonds In Proteins
1:14:32- Formation of Disulfide Bonds in Proteins
1:14:49- Glutathione as an Intracellular Thiol Buffer
1:15:07- Facile Disulfide Exchange Happens Constantly
1:15:34- Protein Structure
1:15:57- Protein Organization Hierarchy
1:17:33- Most Common Protein Structures
1:17:50- All a-Helical Proteins
1:17:53- Zn Fingers as Very Common a-Helical Proteins

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 12. Introduction to Chemical Biology -- Protein Functions
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded February 15, 2013.

Index of Topics:
Announcements
0:01:03- Week 7 Overview
0:02:56- Announcements
0:04:20- Writing a Chemical Biology Proposal (EEE Website)
0:13:46- Office Hours

Lecture
0:14:15- Enzymes In The News
0:15:32- Our Story to Date on Tuesday...
0:18:28- All B-Sheet Proteins
0:21:12- Immunoglobulin Dominates for Scaffolding and Molecular Recognition
0:22:42- All B-Sheet Proteins (revisited)
0:27:13- WD Proteins Scaffold Together Large Assemblies
0:28:12- Collagen is Formed From a 3-Stranded Coil
0:29:21- All a-Helical Proteins
0:31:40- a/B Proteins
0:32:10- Repeat Proteins
0:32:45- Repeat Proteins, Slide 2
0:33:21- Peptide Binding Domains
0:34:02- Peptide Binding Domains, Slide 2
0:34:49- Peptide Binding Domains, Slide 3
0:36:48- Peptide Binding Domains, Slide 4
0:39:05- Higher Order Assemblies of Proteins
0:41:23- Equilibrium Constants to Describe the Strengths of Non-Covalent Interactions
0:43:47- Rapamycin and FK506 Bind to FKBP to Form a Composite Surface
0:45:01- Examples of Non-Covalent Receptor-Ligand Interactions
0:46:54- Following the Speeds of Reactions
0:49:25- Rates of Non-Covalent Interactions
0:50:16- Typical Rates of Binding
0:53:09- Measuring Biological Potency Through Dose Response Curve
0:56:26- Measuring Biological Response by ELISA
0:57:43- How to Run an ELISA
0:59:36- Steptavidin-Biotin Offers Near Covalent Binding Affinity
1:00:39- Biotinylated Reagents Used Extensively in Chemical Biology
1:02:46- Isolating Targets Using Biotinylated Probes
1:03:47- Enzymatic Catalysts = Catalytic Receptors
1:05:39- Enzymes Work By Stabilizing & Thus Lowering the Energy of Transition States
1:08:32- Example of Enzymatic Catalysis
1:10:55- Inhibiting Enzymes by Mimicking the Transition State of the Reaction

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 13. Introduction to Chemical Biology -- Protein Function and Enzymes
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded February 21, 2013.

Index of Topics:
0:00:29- Week 7 Overview
0:00:41- Our Story to Date...
0:03:20- Repeat Proteins
0:05:16- Equilibrium Constants to Describe the Strengths of Non-Covalent Interactions
0:06:25- Enzymatic Catalysts = Catalytic Receptors
0:06:55- Enzymes Work By Stabilizing & Thus Lowering the Energy of Transition States
0:07:03- Michaelis Constant for Measuring Catalysis
0:10:53- Typical Km Values
0:12:47- Typical Kcat Values
0:15:30- The Perfect Enzyme
0:18:02- Systematic Examining Enzymes
0:21:29- Kinases: Phosphorylation of Ser/Thr or Tyr
0:22:41- Can Inhibit Enzymes by Substrate Mimicry
0:24:24- The Kinase Active Site
0:26:03- The Mechanism of Kinase Catalysis
0:28:06- Kinase Activity is Tightly Regulated
0:31:17- Phosphorylation to Activate Kinase
0:34:19- Why Study Single Molecules?
0:37:44- How to Follow Enzymatic Catalysis with Single Walled Carbon Nanotubes
0:41:34- Single Molecule Bioelectronics
0:42:29- A Single Enzyme in the Nanocircuit
0:44:24- Before and After Enzyme Attachment
0:46:29- Watching cAMP-Dependent Protein Kinase A
0:49:18- Further Generalization: Protein A Kinase
0:55:55- Lysozyme as a Model Enzyme for Glycoside Hydrolysis
0:57:37- Mechanism of Lysozyme (Example of a Hydrolase)
1:02:07- Comparing Single Molecule Signals: Bioelectronic vs. FRET
1:02:14- Watching a Single Enzyme-Electronically
1:02:42- Lysozyme Exhibits Two Types of Binary Switching
1:04:23- Individual Lysozymes on Nanotubes Confirms Previous Studies
1:04:29- Lysozyme Processively Transits Through Peptide Cross-Links in the Substrate
1:05:29- Lysozyme Processively...Slide 2
1:08:22- Proteases Cleave Amide Bonds
1:09:19- Mutations In Protease-Based Pathways Can Have Dire Consequences
1:09:41- Apoptosis is Regulated By a Cascade of Protease Reactions
1:10:06- Cysteine-Based Proteases
1:10:46- Mechanism for Cysteine-Based Protease
1:12:21- Serine-Based Proteases
1:13:30- Serine Proteases
1:12:32- Zinc Proteases
1:12:37- Regulation of Proteases Through Pro-Enzymes
1:13:38- Inhibiting Protease Reversibility
1:14:35- Protein Based Inhibition of Proteases

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 14. Introduction to Chemical Biology -- Glycobiology
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded February 22. 2013.

Index of Topics:
Announcements
0:00:23- Week 8 Overview
0:01:29- Announcements

Lecture
0:02:04- Our Story to Date
0:06:10- Serine Based Proteases
0:09:07- Serine Proteases
0:10:34- Zinc Proteases
0:10:44- Protein Based Inhibition of Proteases
0:13:10- Covalent or Mechanism-Based Protease Inhibitors
0:15:02- Inhibition of Serine Esterases
0:17:07- Enzymes Use Co-Factors (vitamins)
0:18:02- Niacin (Vitamin B3) Provides a Reactive Hydride
0:21:31- The Origins of Stereospecificity in Alcohol Dehydrogenase
0:24:09- Pyridoxal Phosphate (Vitamin 86)
0:26:27- PLP as a Co-Factor for Decarboxylation
0:27:29- PLP-Catalyzed Transamination
0:29:29- Protein Engineering
0:31:04- Reverse Engineering Protein Function
0:32:37- Human Growth Hormone as a Testbed for Protein Engineering
0:32:45- A Closer Look at the hGH Binding Interface
0:34:12- Subtilisin as a Testbed for Protein Engineering
0:36:16- Most Mutations Make the Protein Less Functional
0:38:17- Carbohydrates
0:40:04- Only 9 Carbohydrate Building Blocks are Found in Humans
0:40:58- Carbohydrate Nomenclature
0:42:53- Anomers of Carbohydrates
0:44:20- The Anomeric Effect Offers Counterintuitive Stabilization of Carbohydrate Conformations
0:44:30- Hemiacetal Reactivity and Formation
0:46:33- Glucopyranose is the Most Noteable Ring Configuration
0:47:51- Oligosaccharhides of the TB Coat
0:49:40- Oligosaccharides Form Complex Structures
0:51:29- Oxocarbenium Ions as a Key Intermediate in Hydrolysis of Glycosidic Bonds
0:53:19- Mechanisms of Enzymatic Hydrolysis
0:54:58- Commonalities in Glycosylhydrolase Mechanisms
0:55:35- Glycosylhydrolase Use Judicious Protonation
0:56:03- Neuraminidase: Key Enzyme in Influenza Release from Surface of the Cell
0:57:32- Neuraminidase Inhibitors
1:01:06- Oligosaccharides
1:02:14- Biosynthesis of Oligosaccharides
1:03:39- Mechanism of Glycosyl Transferases
1:04:22- Polysaccharides
1:06:15- Chitin: Polymer of N-acetylglucosamine
1:08:04- Hyaluronan: Oligosaccharides in Joints
1:09:57- Glycosylated Proteins

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 15. Introduction to Chemical Biology -- Glycobiology & Polyketides
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded March 5, 2013.

Index of Topics:
00:19- Our Story to Date...
03:13- Our Story to Date, Slide 2
03:15- Glycosylated Proteins
04:35- O-Linked Glycoproteins
07:25- Extending Oligosaccharides One Monomer at a Time
08:26- More Knee Joint Oligosaccharides
10:25- Snot and Mucus: Anionic Polysaccharides
13:21- N-Linked Glycosides: Added as Complex Oligosaccharides
15:51- Mechanism for Glycosyl Transfer
20:05- N-Linked Glycosides Heavily Trimmed
22:56- What is the Function of Glycosylation?
24:10- Glycosylation Can Play a Key Role in Anitbody Recognition
25:37- Cell Culture Production of Proteins
27:54- Glucoronidation Used to Designate Small Molecules for Excretion
29:49- Glucose Homeostasis
31:39- Non-Enzymatic Glycosylation
32:12- Non-Enzymatic Glycosylation Causes Protein Cross-Linking
35:29- Sweetners: Taste Good for the Calories
36:33- Aspartame: Dipeptide Sweetner
37:44- Other Sweetners
39:24- Aspartame: Dipeptide Sweetener (revisited)
40:30- The Central Dogma of Modern Biology
41:00- Terpenes and Polyketides
41:55- Polyketides: Natural Products Synthesized by Stepwise Aldol Reactions
43:22- Polyketides are built by the Claisen Reaction
45:09- Nature Prefers Thioesters for the Claisen
46:46- Claisen Reaction in Biology
48:06- Rapid Exchange of Thioesters
49:28- Fatty Acid Synthesis by Polyketide
50:07- Omega Fatty Acids: Crucial for Brain Chemistry
51:24- Fatty Acid Synthesis by Polyketide
51:54- Omega Fatty Acids: Crucial for Brain Chemistry (revisited)
53:12- Fatty Acid Synthase: Paradigm for a Polyketide Synthesis Machine
54:37- Step 1: Load Thiol onto Acyl Carrier Protein (ACP)
55:30- Transacylation as a Facile Reaction for Loading Polyketide Subunits
56:06- Ketosynthases Catalyze a Decarboxylative Claisen Condensation
57:06- Ketoreductase to Convert Carbonyl to Alcohol Functionality
57:42- Elimination of the Alcohol to Provide an Olefin
58:05- Enoyl Reductases to Reduce C=C
58:13- Last Step: Release from PKS by Thioesterase
58:31- Fatty Acid Synthase: Paradigm for a Polyketide Synthesis Machine

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 16. Introduction to Chemical Biology -- Glycobiology & Polyketides -- Part 2
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded March 5, 2013.

Index of Topics:
0:00:33- Our Story to Date
0:08:45- Fatty Acid Synthase: Paradigm for a Polyketide Synthesis Machine
0:09:06- Ketosynthases Catalyze a Decarboxylative Claisen Condensation
0:09:30- Last Step- Release from PKS by Thioesterase
0:10:58- Plasma Membrane = Lipid Barrier
0:12:07- Plasma Membrane = Lipid Barrier, Slide 2
0:13:44- Hydrolysis of Lipids in Cell Signaling
0:15:26- Prostaglandin Signaling to Coordinate Cell Response
0:16:15- Leukotrienes Mediate Inflammatory Response
0:19:09- Shutting Down the Prostaglandin Pathway at its Start
0:19:58- Leukotrienes Mediate Inflammatory Response
0:20:05- Shutting Down the Prostaglandin Pathway at its Start (revisited)
0:23:39- Converting Fats into Soaps
0:25:54- Diversifying Products from Polyketide Synthases
0:27:36- Aromatic Natural Products Sythesized from Polyketides
0:29:31- Complexity in Polyketide Natural Products
0:33:42- Polyketides are Assembled by Assembly Line-Like Polyketide Synthases
0:37:52- The PKS Assembly Line is Doughnut Shaped
0:39:54- Fatty Acid Synthase (FAS) Has a Circular Assembly Line
0:40:56- Comparing FAS and Erythronolide PKS
0:44:18- Terpenes: Built from Isoprene (5C) Units
0:46:27- Terpenes in Biology and Pharmaceuticals
0:49:00- Terpene Synthases as Factories for Complex Organic Synthesis
0:50:01- More Complex Terpenes
0:50:13- Origins of the Head-To-Tail Rule
0:52:04- Reaction Mechanisms for Terpene Sythesis
0:56:18- Inhibition of Cholesterol Synthesis
0:57:26- Connecting Isoprene Units
0:57:48- Cyclization of Straight-Chain Precursors by Enzymes
1:00:13- Terpene Synthases Direct Carbocation Cascades--in Water (!)
1:00:37- Cyclization of Straigh-Chain Precursors by Enzymes

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 17. Introduction to Chemical Biology -- Terpenes and Cell Signaling -- Part 1
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded March 12, 2013.

Index of Topics:
Announcements
0:00:21- Week 10 Overview
0:00:41- Announcements
0:05:42- Office Hours

Lecture
0:06:34- Our Story to Date...
0:08:55- Biogenic head-To-Tail Synthesis of Terpenes
0:10:29- Mechanism for Head-To-Tail C-C Bond Formation
0:13:25- Some Common Linear Terpenes
0:14:41- Protein Prenylation: Localizes Protein to the Membrane
0:18:03- Bisphosphonates: Anti-Osteoporosis Drugs
0:20:27-The Rich Structural Diversity of Terpenes
0:21:35- Cyclization Cascades in Biosynthesis
0:23:29- Biosynthesis of Lanosterol
0:26:19- Humans Cannot Synthesize Retinoids
0:28:29- Dialing-In the Pink Color of Salmon
0:35:15- Non-Human Terpenes in Plants and Microorganisms
0:33:01- Reaction to Dye Brunette Hair Blonde Before the Invention of Hydrogen Peroxide
0:34:51- Cyclization of Isoprene Oligomers
0:39:51- Control Over the Central Dogma
0:42:22- Ancient Small Molecules with Bioactivity
0:44:53- Cell Signaling by Small Molecules
0:46:08- Arrows in Chemistry and Biology
0:49:11- Cell Signaling Scenarios
0:51:24- Spilling their Guts
0:52:28- Two Classes of Cell Signaling
0:53:11- Cell Signaling Involves 7 (seven) Possible Pathways
0:54:50- The 7 Signaling Pathways
0:56:16- Genetics to Dissect Complex Biology
0:58:21- Forward Chemical Genetics
1:01:06- Small Molecules Offer Control Over Otherwise Unavailable Phenotypes
1:02:16- High Thoughtput Small Molecule Screening
1:07:48- Nuclear Hormone Receptors
1:09:48- Estrogen Signaling
1:11:46- Retinoic Acid Signaling
1:13:16- Structure of a Nuclear Receptor Bound to DNA
1:15:10- Steroids Make Highly Potent Pharmaceuticals
1:16:57- Non-Steroidal Ligands to Nuclear Receptors
1:18:14- In Vivo Biosynthesis of Calcitriol
1:19:23- Restoring Biological Function of a Mutant Vitamin D Receptor

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 128 Introduction to Chemical Biology (Winter 2013)
Lec 18. Introduction to Chemical Biology -- Terpenes and Cell Signaling -- Part 2
View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html
Instructor: Gregory Weiss, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways.
Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html

Recorded March 14, 2013.

Index of Topics:
Announcements
0:00:14- Week 10 Overview
0:00:23-Announcements
0:02:38- Office Hours

Lecture:
0:03:13- Our Story to Date on Thursday...
0:07:19- The 7 Signaling Pathways
0:09:41- Control Over Cell Differentiation Through Cytokines
0:11:19- Excess Growth Hormone Causes Acromegaly
0:11:56- Control Over Cell Differentiation (revisited)
0:12:04- Erythropoietin Signals Through the Jak-STAT Pathway
0:14:28- Erythropoietin Signals Through the Jak-STAT Pathway, Slide 2
0:15:16- Erythropoietin Signals Through the Jak-STAT Pathway, Slide 3
0:16:03- Chemical Control Over Cell Signaling Through Dimerization
0:19:25- Non-Specific Dimerization by Covalent Cross-Linking
0:22:25- Modification of Proteins for Better Properties
0:25:57- Growth Factor Signaling Through Cell Surface Kinases
0:27:12- Receptor Tyrosine Kinases: Growth Factor Signaling
0:28:59- Human Growth Hormone (hGH)
0:29:52- Small Molecule Inhibition of RTKs
0:33:19- Sequential Phosphorylation
0:34:22- MAP Kinase Signaling
0:35:51- Already Discussed: SH3 Domain Binding to a Polyproline Helix
0:36:00- Peptide Binding Domains
0:36:35- MAP Kinase Signaling (revisited)
0:38:32- Small Molecules in Cell Signaling
0:41:23- Key Players: Heparan Sulfate and CA2+
0:42:28- 4. G Protein-Coupled Receptors
0:44:19- Turning On and Off Signals from Binding
0:45:46- Turning On and Off Signals from Binding, Slide 2
0:46:22- GPCR's Signal Through a G Protein
0:46:42- Turning On and Off Signals from Binding, Slide 2 (revisited)
0:53:07- Much Larger Dynamic Range
0:54:02- GPCR Signaling
0:55:35- Smell and Taste Signaling through GPCRs
0:56:43- Small and Taste Signaling through GPCRs, Slide 2
0:58:15- Vision Through Cis-Trans Olefin Isomerization
1:00:11- Vision Through Cis-Trans Olefin Isomerization, Slide 2
1:01:35- 5. Ion Channel Signaling
1:02:41- Control over the Ca2+ Activated K+ Channel
1:03:31- Trimeric Death Receptors
1:03:59- Trimeric Death Receptor Signaling
1:04:38- Signaling By Diffusible Gas Molecules
1:06:58- NO Causes Relaxation of Smooth Muscle in Blood Vessles
1:07:36- NO Causes Relaxation of Smooth Muscle in Blood Vessels,Slide 2
1:08:38- Chemical Biology: Understanding Biology at the Level of Atoms and Bonds
1:09:25- Chemical Biology: Who Are We?
1:09:58- Chemical Biology: Where Did We Come From?
1:10:22- Chemical Biology: Where Are We Going?
1:11:05- Chemical Biology: Impacting Society--Join Us At The Frontier

Required attribution: Weiss, Gregory Introduction to Chemical Biology 128 (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

UCI Chem 131C Thermodynamics and Chemical Dynamics (Spring 2012)
Lec 11. Thermodynamics and Chemical Dynamics -- Midterm I Review --
View the complete course: http://ocw.uci.edu/courses/chem_131c_thermodynamics_and_chemical_dynamics.html
Instructor: Reginald Penner, Ph.D.

License: Creative Commons BY-NC-SA
Terms of Use: http://ocw.uci.edu/info.
More courses at http://ocw.uci.edu

Description: In Chemistry 131C, students will study how to calculate macroscopic chemical properties of systems. This course will build on the microscopic understanding (Chemical Physics) to reinforce and expand your understanding of the basic thermo-chemistry concepts from General Chemistry (Physical Chemistry.) We then go on to study how chemical reaction rates are measured and calculated from molecular properties. Topics covered include: Energy, entropy, and the thermodynamic potentials; Chemical equilibrium; and Chemical kinetics.

Thermodynamics and Chemical Dynamics (Chem 131C) is part of OpenChem: http://ocw.uci.edu/openchem/
This video is part of a 27-lecture undergraduate-level course titled "Thermodynamics and Chemical Dynamics" taught at UC Irvine by Professor Reginald M. Penner.

Recorded on April 25, 2012.

Index of Topics:

00:05 - Announcements
00:28 - Midterm Exam
00:52 - Partition Functions: Enjoy in any of Four Flavors...
01:51 - Example: The NO molecule has a doubly degenerate...
03:24 - Plot It:
05:01 - ...(b) the electronic contribution to the molar internal energy...
05:08 - Equations
05:22 - More Equations
05:38 - (Diagram) The electronic contribution to the molar internal energy...
06:32 - Here's a midterm exam question from a couple of years ago.
08:42 - Which equation(s) do I need?
10:31 - If you are asked: calculate the fraction of molecules...
10:48 - so what were we asked again? B. Now one mole of...
12:06 - The equipartition theorem:
13:33 - now you'll recall that the heat capacity...
14:15 - Formula: the equipartition theorem tells us...
14:17 - the equipartition theorem tells us that translation contributes...
14:41 - Graph: the contribution of molecular translation...
14:55 - Formula: ...this is also the heat capacity for all monoatomic gases
16:01 - For a linear molecule:
16:44 - Graph: translation + rotation
16:53 - For nonlinear molecule:
17:45 - ...well, let's go back to the classical Hamiltonian again.
18:12 - so following through with the predictions of the equipartition...
18:58 - Formula: in the specific case of a diatomic, we get:
19:02 - Formula Graph:
19:10 - Example: Use the equipartition theorem to estimate...
20:05 - Too subjective, let's use this rule of thumb:

Required attribution: Penner, Reginald Thermodynamics and Chemical Dynamics 131C (UCI OpenCourseWare: University of California, Irvine),  http://ocw.uci.edu/courses/chem_131c_thermodynamics_and_chemical_dynamics.html. [Access date]. License: Creative Commons Attribution-ShareAlike 3.0 United States License.

This topical index contains the names of the topics covered in all of Chem 1A. With this spreadsheet, you can quickly click on the appropriate URL to go to precisely the topic you want to review, regardless of which lecture it is in. Because it is a spreadsheet, you can also search in the first column for the name of a topic in which you are interested.