Informatics Models of Recognitions of Protein Synthesis
Asian Journal of Biochemistry,
2007, 2(6), 432-436.
We propose informatics models, using concepts of informative intensity, informative response intensity and informative flux, with different expressions and multiple layers, to describe informative recognitions between a large ribosomal subunit and a complex constructed with a small ribosomal subunit and an initiator tRNA bound on an initiation codon on an mRNA and between base-pairs of a triplet nucleotides (codon) at A site in a ribosome and on an mRNA and a sequence of three complementary nucleotides (anticodon) of a particular tRNA, beyond lengths of chemical bonds, for a natural protein synthesis. In a special expression of (quasi) electrostatics, our model shows the large ribosomal subunit and the complex have a negative informative recognition because they have an attractive force, it is the informative response Intensity to control their relative movements and spatial positions and to make a final decision, for the large ribosomal subunit, to hug, to leave or to ignore the complex. In a special expression of quantum mechanics, our model demonstrates normal complementary base-pairs of the codon and the anticodon have negative Informative Recognitions because their interactive forces are attractive; the other base-pairs have positive informative recognitions because their interactive forces are repulsive. A previous study reported a probability of wrong base-pairs is about 1/10000. With this probability, we estimate a constant barrier height of a potential energy function, the height is about 0.28 eV at a temperature of 37°C.
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