Biochemistry Online: An Approach Based on Chemical Logic

List of Tables

06/05/2010

Chapter 1:  Lipid Structure

• Names and structures of the most common fatty acids
• Membrane lipid composition of average mammalian cell
• Phase Transition Temperatures for glycerophospholipids
• Thermodynamic Parameters for Transfer of Aliphatic Alcohols from the Pure Liquid to Water at 25oC
• Thermodynamic Parameters for Transfer of Hydrocarbons from Water to Interior of Dodecyl Sulfate Micelles and from Water to Pure Liquid Hydrocarbon State

Chapter 2:  Protein Structure

• Secondary Structure:  Types of Helices

• Beta helices (understanding conformation)

• pKa values of ionizable side chains in a series of protein

• Amino Acid Partitioning Into Membrane Regions (prot fold/stab)

• Summary of Partition Coefficient (K_P = m^{hydration sphere}/m^bulk) for urea and GuHCl effects on protein stability for BSA

• Site-Specific Mutagenesis: Experimental and Theoretical Changes in Protein Stability

• Asn to Ala mutants: H bonds and Protein Folding

• Possible Explanation of Destabilization of Asn to Ala Mutants

• Packing Densities

• Chou-Fasman Amino Acid Propensities

• Hydrophobicity Indices for Amino Acids

• Rhodopsin Hydropathy Results

Chapter 3:  Carbohydrates

• Lectins and CHO ligands

Chapter 4:  DNA, Genomics, and Proteomics

Chapter 5:  Binding

• Calculated k_off and t_1/2 for binary complexes assuming diffusion-controlled k_on

• Characteristics of Antibody:Hen Egg Lysozyme Complexes

• Free Energy of Oxygen Binding to Hb T and D.

• Prokaryotic promoter sequences

• Eukaryotic Response Elements  (RE)s

• Transcription Factors:  Functional Classification

Chapter 6:  Transport and Kinetics

• Permeability coefficient (cm^.s^-1) of natural and synthetic membranes to D-Glucose and D-mannitol at 25^oC. 
• Km and k_cat values for various enzymes
• Diffusion controlled enzymes

Chapter 7:  Catalysis

• Entropy changes on binding reactions
• Chymotrypsin substrate cleavage, 25^oC, pH 7.9

• Kinetic constants for chymotrypsin cleavage of N-acetyl-L-Trp Derivatives - N-acetyl-L-Trp-X

• Classification of Proteases

• Time Scales of Dynamic Events in Enzyme Catalysis

• Chymotrypsin Activity in Organic Solvents

• Half-Life of Chymotrypsin Activity in Water and Octane

• Chyymotrypsin Specificity Changes in Water and Octane

• Chymotrypsin Inhibition Constants in Water and Octane
  

Chapter 8:  Oxidation/Phosphorylation

• Standard Reduction Potential Table
• Cyclooxygenase Activities
• Biological Effects of n-3 polyunsaturated fatty acids EPA (20:5) and DHA (22:6)

Chapter 9:  Signal Transduction

• Ion permeability of phosphatidyl serine vesicles

• Typical ion concentrations and permeabilities for mammalian membranes.

• Relative Permeabilities of the Na and K Channels in Axon Membranes

• Some enzymes regulated by cAMP-dependent phosphorylation by PKA

• The Kinome

• Examples of different signals, receptors, G_a like-subunits, second messenger changes, and affected intracelluar enzymes