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Unformatted text preview: Mcb 102 Midterm I Study Guide
Chapters 1 & 2 - Building blocks of cells -Compartmentalized vs. Non compartmentalized cells - Sterics / Bonding Arrangements / Chirality - Reaction Energetics - Central Dogma, Evolution - Unity of Life at the Biochemical Level - Water [H-bonds, ordered water] - Weak Acid/Base, pKa Chapters 2 & 3 - Amino Acids [Structures, Characteristics, pKa values] - Isoelectric Point - Environment altered/ inﬂuenced pKa values - Peptide bond formation reaction - Protein Puriﬁcation - Centrifugation - Bulk Fractionation - Chromatography [Ion Exchange, Size Exclusion, Afﬁnity] - Understanding of a ʻtypicalʼ protein preparation - Gel Electrophoresis [Native vs. SDS PAGE Gel] - Protein Concentration - Activity Assays [Speciﬁc Activity as a measure of sample purity] - Protein Synthesis - Protein Sequencing - Mass Spec - Sequence Logo (Prevalence of an amino acid at a given position) - Pairwise Alignment [Differences, Matches, Similarities] - Paralog, Ortholog, Homolog Chapter 4 - Peptide bond structure, phi psi angles - Primary, Secondary, Tertiary, Quaternary Structure - Ramachandran Plot - Domain, Motif, Subunit - Folding Energetics, [Pathway vs. Collapse] - Chaperones & Chaperonins - Effects of Misfolding Chapter 5 - Hemoglobin - Heme coordination, ligand binding, binding equilibrium, tense vs. relaxed state - Allosteric Binding, Multi-site Binding, MWC vs. Seqeuntial Models - Heterotrophic Allostery - Bohr effect, BPG, CO binding - Antibodies, epitope binding - Myosin Pathway (Energy coupled allostery) Chapter 6 - Enzymes as catalysts accelerate rate, do NOT change Keq - How enzymes accelerate a reaction - transition state stabilization - why this is better than binding substrate tightly - aid reaction chemistry (appears multiple times in material) - Michaelis Menten - Transformations of the MM equation, how they are used - Inhibitors - Classes of inhibitors - How classes of inhibitors effect MM graphs, Km/Vmax - Chymotrypsin - Reaction Mechanism - Conformational Change & pKa change - Fast step/ Slow step [how was this seen with assay data?] - Drug discovery & Design - Drug resistance - Enzyme Regulation Strategies - Why inhibit a enzyme early in a pathway? - Positive feedback - Covalent enzyme modiﬁcation - Effects of allostery (agonist & antagonist) Chapter 7 - Sugar nomenclature & structure - Sugar chains [secondary structure, ramachandran, phi psi] - Sugar mediated enzymes / Sugar-Protein interactions - Glycosylated proteins Chapters 10 & 11 - Saturated / Unsaturated fatty acids - Physical characteristics - Physiological effects - Steroids - Bilayers, micelles, vesicles - Secretion Pathway - Bilayer mediated pathways - Transmembrane proteins - Diffusion w/ and w/out transporter - Membrane Uniport/Symport/Antiport ...
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This note was uploaded on 02/21/2010 for the course MCB 102 taught by Professor Staff during the Spring '08 term at University of California, Berkeley.
- Spring '08