A code in the protein coding genes

Bio Systems
D G Arques, Christian J Michel

Abstract

A statistical analysis with 12,288 autocorrelation functions applied in protein (coding) genes of prokaryotes and eukaryotes identifies three subsets of trinucleotides in their three frames: T0 = X0 [symbol: see text] {AAA, TTT} with X0 = {AAC, AAT, ACC, ATC, ATT, CAG, CTC, CTG, GAA, GAC, GAG, GAT, GCC, GGC, GGT, GTA, GTC, GTT, TAC, TTC} in frame 0 (the reading frame established by the ATG start trinucleotide), T1 = X1 [symbol: see text] {CCC} in frame 1 and T2 = X2 [symbol: see text] {GGG} in frame 2 (the frames 1 and 2 being the frame 0 shifted by one and two nucleotides, respectively, to the right). These three subsets are identical in these two gene populations and have five important properties: (i) the property of maximal (20 trinucleotides) circular code for X0 (resp. X1, X2) allowing to retrieve automatically the frame 0 (resp. 1, 2) in any region of the gene without start codon; (ii) the DNA complementarity property C (e.g. C(AAC) = GTT): C(T0) = T0, C(T1) = T2 and C(T2) = T1 allowing the two paired reading frames of a DNA double helix simultaneously to code for amino acids; (iii) the circular permutation property P (e.g. P(AAC) = ACA): P(X0) = X1 and P(X1) = X2 implying that the two subsets X1 and X2 can be deduced fr...Continue Reading

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Citations

Apr 15, 1999·Bio Systems·D G ArquésC J Michel
Mar 16, 2002·Journal of Theoretical Biology·J Lacan, C J Michel
Apr 8, 2010·Journal of Theoretical Biology·Fernando Castro-Chavez
Jan 30, 2007·Computational Biology and Chemistry·Christian J Michel
Jan 24, 2019·Expert Review of Proteomics·Xinqiang YinHanmei Xu
Sep 13, 2019·Nucleic Acids Research·Jonathan CallesDrew Endy
Nov 18, 2017·Theory in Biosciences = Theorie in Den Biowissenschaften·Hervé Seligmann
Jul 6, 2020·Bio Systems·Christian J Michel
Apr 7, 2020·Bio Systems·Gopal DilaJulie D Thompson

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