Protein Sequences Recapitulate Genetic Code Evolution

Computational and Structural Biotechnology Journal
Hervé Seligmann

Abstract

Several hypotheses predict ranks of amino acid assignments to genetic code's codons. Analyses here show that average positions of amino acid species in proteins correspond to assignment ranks, in particular as predicted by Juke's neutral mutation hypothesis for codon assignments. In all tested protein groups, including co- and post-translationally folding proteins, 'recent' amino acids are on average closer to gene 5' extremities than 'ancient' ones. Analyses of pairwise residue contact energies matrices suggest that early amino acids stereochemically selected late ones that stablilize residue interactions within protein cores, presumably producing 5'-late-to-3'-early amino acid protein sequence gradients. The gradient might reduce protein misfolding, also after mutations, extending principles of neutral mutations to protein folding. Presumably, in self-perpetuating and self-correcting systems like the genetic code, initial conditions produce similarities between evolution of the process (the genetic code) and 'ontogeny' of resulting structures (here proteins), producing apparent teleonomy between process and product.

Citations

Mar 30, 2019·Annals of the New York Academy of Sciences·Hervé Seligmann
Apr 7, 2019·Journal of Molecular Evolution·Jacques Demongeot, Hervé Seligmann
May 24, 2019·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Jacques Demongeot, Hervé Seligmann
Apr 30, 2020·Biology·Jacques Demongeot, Alexandra Henrion-Caude
Jul 4, 2019·Die Naturwissenschaften·Jacques Demongeot, Hervé Seligmann
Apr 1, 2020·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Jacques Demongeot, Hervé Seligmann
Jan 25, 2020·BMC Genetics·Jacques Demongeot, Hervé Seligmann
Jan 8, 2020·Journal of Molecular Evolution·Jacques Demongeot, Hervé Seligmann
Dec 16, 2020·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Jacques DemongeotHervé Seligmann
Dec 31, 2020·Life·Alexander Nesterov-MuellerHervé Seligmann
Oct 9, 2020·Gene·Jacques Demongeot, Hervé Seligmann
Apr 3, 2019·Journal of Theoretical Biology·Jacques Demongeot, Hervé Seligmann

❮ Previous
Next ❯

Methods Mentioned

BETA
protein folding
protein-folding

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.