Codes in the codons: Construction of a codon/amino acid periodic table and a study of the nature of specific nucleic acid - Protein interactions

B. Benyó, J. C. Biro, Z. Benyó

Research output: Contribution to journalConference article

5 Citations (Scopus)

Abstract

The theory of "codon-amino acid coevolution" was first proposed by Woese in 1967. It suggests that there is a stereochemical matching - that is, affinity - between amino acids and certain of the base triplet sequences that code for those amino acids. We have constructed a Common Periodic Table of Codons and Amino Acids, where the Nucleic Acid Table showed perfect axial symmetry for codons and the corresponding Amino Acid Table also displayed periodicity regarding the biochemical properties (charge and hydrophobicity) of the 20 amino acids and the position of the stop signals. The Table indicates that the middle (2nd) amino acid in the codon has a prominent role in determining some of the structural features of the amino acids. The possibility that physical contact between codons and amino acids might exist was tested on restriction enzymes. Many recognition site-like sequences were found in the coding sequences of these enzymes and as many as 73 examples of codon - amino acid co-location were observed in the 7 known 3D structures (December 2003) of endonuclease-nucleic acid complexes. These results indicate that the smallest possible units of specific nucleic acid - protein interaction are indeed the stereochemically compatible codons and amino acids.

Original languageEnglish
Pages (from-to)2860-2863
Number of pages4
JournalAnnual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings
Volume26 IV
Publication statusPublished - Dec 1 2004
EventConference Proceedings - 26th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2004 - San Francisco, CA, United States
Duration: Sep 1 2004Sep 5 2004

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Keywords

  • Amino acid
  • Codon
  • Coevolution
  • Interaction
  • Periodic table
  • Stereochemical matching

ASJC Scopus subject areas

  • Signal Processing
  • Biomedical Engineering
  • Computer Vision and Pattern Recognition
  • Health Informatics

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