ArticleComputational and structural biotechnology journal2018
Protein Sequences Recapitulate Genetic Code Evolution.
Article in Computational and structural biotechnology journal, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Traces of a Primitive RNA Ring in Current Genomes.Biology · 2025Article
- Unpredictable, Counter-Intuitive Geoclimatic and Demographic Correlations of COVID-19 Spread Rates.Biology · 2021Article
- Combinatorial Fusion Rules to Describe Codon Assignment in the Standard Genetic Code.Life (Basel, Switzerland) · 2020Article
- Comparisons between small ribosomal RNA and theoretical minimal RNA ring secondary structures confirm phylogenetic and structural accretion histories.Scientific reports · 2020Article
- First arrived, first served: competition between codons for codon-amino acid stereochemical interactions determined early genetic code assignments.Die Naturwissenschaften · 2020Article
- Article
- Pentamers with Non-redundant Frames: Bias for Natural Circular Code Codons.Journal of molecular evolution · 2020Article
- The primordial tRNA acceptor stem code from theoretical minimal RNA ring clusters.BMC genetics · 2020Article
- Theoretical minimal RNA rings designed according to coding constraints mimic deamination gradients.Die Naturwissenschaften · 2019Article
- More Pieces of Ancient than Recent Theoretical Minimal Proto-tRNA-Like RNA Rings in Genes Coding for tRNA Synthetases.Journal of molecular evolution · 2019Article
- Emergence of a "Cyclosome" in a Primitive Network Capable of Building "Infinite" Proteins.Life (Basel, Switzerland) · 2019Article
Corrections and comments
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1 author.
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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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.