Search results for "index" ( 364 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/openchem

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/openchem

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/openchem

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/openchem

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/openchem

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/openchem

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/openchem

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
0:09:48 - 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/openchem

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/openchem

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/openchem

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/openchem

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/openchem

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/openchem

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
1:12:30 - 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/openchem

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/openchem

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/openchem

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/openchem

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
0:30:15 - 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.