Cell Language Theory, The: Connecting Mind And Matter

The Universality of the Planckian Distribution Equation 349

“6x9” b2861 The Cell Language Theory: Connecting Mind and Matter

entropy, heat capacity, and the length distributions of 4, 3000 proteins

from E. coli, Dill and his coworkers derived a theoretical equation for

protein stability which generated the experimental curve shown in

Figure 8.6(b) [123]. As evident, this theoretical curve is simulated by the

PDE with a great precision. The SID–TEM–TOF mechanism discussed in

Section 8.2.3 as applied to protein folding would indicate that protein fold-

ing involves (a) thermal fluctuations of conformations, (b) a subset of

these conformations is selected for ground-state structures by some trig-

gering signals (yet to be identified), and (c) the goals of the selected pro-

tein folding pathways is to perform some biological functions (e.g.,

catalysis, ligand recognition, molecular motoring, etc.) and not necess arily

to minimize the Gibbs free energies of folding as was widely assumed.

8.3.3 Single-Molecule Enzyme Kinetics of Cholesterol

Oxidase (Figure 8.6(c))

The fitting of the single-molecule enzyme turnover histogram of choles-

terol oxidase was discussed in Section 8.2.1 in detail. Just as the fitting of

the blackbody radiation spectra to PDE implied that PDE captured the

material organization in an atom, so the fitting of the single-molecule

enzyme kinetic data of cholesterol oxidase to PDE may indicate that the

material and processual organizations of the enzyme (see Figure 8.5(a))

which are reflected in the numerical values of the three parameters of

PDE, i.e., A, B, and C. It is important to note that the enzyme catalytic

mechanism thus suggested in combination with the mechanism of laser

(see Figure 8.5(b)) led to the generalization of the enzyme mechanism to

the so-called SID–TEM–TOF mechanism as the possible universal mech-

anism underlying all Planckian processes, or the physicochemical pro-

cesses generating data that fit PDE.

8.3.4 mRNA Levels in Budding Yeast (Figure 8.6(d))

When glucose is switched to galactose within a few minutes, budding

yeast cells undergo massive changes in the copy numbers (from 0 to sev-

eral hundreds) of its mRNA molecules (encoded by 6300 genes) over the

observational period of hours [315]. Using microarrays, Garcia-Martinez

et al. [315] measured the levels of over 5000 mRNA molecules at six time

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