Protein physics

Ward, W. W., and Bokman, S. H. (1982). Reversible denaturation of Aequorea green-fluorescent protein physical separation and characterization of the renatured protein. Biochemistry 21 4535-4540. 

In summary, studies carried out with tissue surrogates25 highlight some of the problems that must be overcome before proteins extracted from FFPE tissues can be used for routine proteomic studies. First, these studies demonstrate that reversal of protein-formaldehyde adducts does not assure quantitative extraction of proteins from FFPE tissues or vice-versa. It may ultimately turn out that there is no one universal method that can accomplish both tasks, but that instead, each step will need to be optimized separately. Studies with tissue surrogates also suggest that failure to quantitatively extract the entire protein component from FFPE tissues may result in sampling bias due to the preferential extraction of certain proteins. This behavior may be linked to protein physical properties, such as the isoelectric point. The results of our... 

Already at the very beginning of his studies in this field [ 1 ] I.M. Lifshitz insisted that the most important stage of the work to follow should be developing a theory of heteropolymers with a frozen (or quenched) disordered sequence of chemically different units. Many years passed before an essential progress was made in this direction despite the motivation originating from protein physics, that is the very problem of protein globules that I.M. Lifshitz had in mind while starting to study polymers. 

Finkelstein AV, Ptitsyn OB (2004) Protein physics. A course of lectures. Academic Press, New York... 

Vucic, D., W. J. Kaiser, and L. K. Miller, Inhibitor of apoptosis proteins physically interact with and block apoptosis induced by Drosophila proteins HID and GRIM. Mol Cell Biol, 1998, 18(6), 3300-9. 

Finkelstein, A.V., Ptitsyn, O.B. (2002). Protein Physics. A Course of Lectures (Soft Condensed Matter, Complex Fluids and Biomaterials), San Diego Academic Press. 

In the literature, some computer models describing the evolution of copolymer sequences have been proposed [26,28]. Most of them are based on a stochastic Monte Carlo optimization principle (Metropolis scheme) and aimed at the problems of protein physics. Such optimization algorithms start with arbitrary sequences and proceed by making random substitutions biased to minimize relative potential energy of the initial sequence and/or to maximize the folding rate of the target structure. 

It should be emphasized that the problem, which we address here, is somewhat different from that usually discussed in the context of protein physics [5-9]. We are not aiming at the search for a unique three-dimensional (native) conformation with a fast folding rate. On the contrary, we are interested in a state with a large entropy. In general, our aim is to learn whether it is possible to make with synthetic copolymers a step along the same line as molecular evolution. 

W. Kauzmann, Reminiscences from a life in protein physical chemistry ,... 

In 1987 [8] and again in 1993 [9], it was pointed out that the hydrophobic liquid model could not be entirely adapted to protein folding, since it completely fails to explain the effects of pressure. Kauzmann points out that volume and enthalpy changes are equally fundamental properties of the unfolding process, and no model can be considered acceptable unless it accounts for the entire thermodynamic behaviour In his Reminiscences from a Life in Protein Physical Chemistry [10], Kauzmann further states ... 

Physical and Chemical Properties of Proteins Physical Properties... 

Finkelstein, Alexei V., and Oleg B. Ptitsyn. Protein Physics A Course of Lectures. San Diego, Calif. Academic Press,... 

Apart from the unfolding of the protein, physical stability or degradation also includes undesirable adsorption to different surfaces and interfaces, which can induce unwanted... 

J. D. Bryngelson, J. N. Onuchic, N. D. Socci et al. Funnels, pathways, and the energy landscape of protein-folding - a synthesis. Proteins, 21 (1995), 167 D. K. Klimov and D. Thirumalai. Criterion that determines the foldability of proteins. Physical Review Letters, 76 (1996), 4070 H. S. Chan and K. A. Dill. Protein folding in the landscape perspective chevron plots and non-arrhenius kinetics. Proteins, 30 (1998), 2. 

In addition to size, shape, distribution, and volume fraction of structural elements generated by proteins, physical and chemical interactions among proteins and other food ingredients also play significant roles in determining the sensory attributes such as texture, flavor, and taste stability satiety and bioactivity of foods (Aguilera and Stanley, 1999 Parada and Aguilera, 2007 Lundin et al., 2008 McClements et al.,... 

Two examples of membrane proteins physically associated to lipids will be discussed bovine erythrocyte acetylcholinesterase and skeletal muscle sarcoplasmic reticulum Ca -Mg " ATPase. 

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