Winter Q 2009 Biol/Chem 472 Metabolism Instructor: Gerry Prody Office CB444 Office hrs: TBA [email protected] .

Winter Q 2009 Biol/Chem 472 Metabolism

• Instructor: Gerry Prody

• Office CB444

• Office hrs: TBA

• [email protected]

• http://lightning.chem.wwu.edu/dept/facstaff/prody/prody-472.htm

What is Biochemistry?

• the systematic torture of students with copious incomprehensible jargon, cryptic fomulae, and impossible insoluble problems.

“Biochemistry is the study of Life as a process that can be understood.”

Primary Objective: understand the molecular mechanisms that constitute the living state (“Molecular Logic”)

Lehninger: “Molecular Logic”“A living cell is a self-assembling, self-regulating, self-replicating isothermal open system of organic molecules operating on a principle of maximum economy of parts and processes; it promotes many consecutive, linked organic reactions for the transfer of energy and for the synthesis of its own components by means of organic catalysts that it produces itself.”

Biol/Chem 471; Biol/Chem 472 ; Biol/Chem 473

Elemental composition of the earth’s surface, including crust, oceans and atmosphere.

Element Percent by mass

Oxygen 49.1Silicon 26.1Aluminum 7.5Iron 4.7Calcium 3.4Sodium 2.6Potassium 2.4Magnesium 1.9Hydrogen 0.88Titanium 0.58Chlorine 0.19Carbon 0.09All others 0.56

Table 1-3 Elemental Composition of the Human Body.

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e 29

Biol/Chem 472 Expected Outcomes• draw enzymatic reactions correctly • correctly calculate Gº’ and G for a given

step or a series of steps in a pathway• rationalize and/or predict features of pathway

regulation and describe regulatory mechanisms• recognize how concentrations of metabolites

are regulated and the impact that changes in flux and/or concentration will have on other processes.

Stryer Fig. 12.30 Fluid Mosaic Model (Nicolson and Singer)

Figure 12-20

Figure 12-37

Figure 12-45 Secretory Pathway

Living cells are not at equilibrium!

Concentrations of reactants and products are typically far from the equilibrium values (Q Keq).

We must consider “steady state” concentrations of these species for the determination of G.

G = Go' + RTlnQ

Homeostaticconditions

Fig 16.2

See Figure 16.3

Catabolicpathways

Anabolicpathways

Figure 16.20

Figure 16.25

°

Table 16.3

°’

31P NMR ofhuman muscle:Before exercise

1 min of exercise

19 min of exercise 10 min after exercise

Pi

phosphocreatineATP

Oxidized cofactors Reduced cofactors

Reduced substrates Oxidized substrates+ +

Fig 17.3

Least oxidized Most oxidized

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e 56

7

Figure 16-21b Some overall coupled reactions involving ATP. (b) The phosphorylation of ADP by phosphoenolpyruvate to form ATP and pyruvate.

“Alfonse, Biochemistry makes my head hurt!!”\