RNA editing

Finding peace and π in the light of H bond energy

It might be amusing if the misrepresentations of links between energy and cell type differentiation by people like PZ Myers were not going to cause more suffering and death.  Instead, two years after his attack on me for my accurate representations of the link from nutrient energy-dependent chromosomal rearrangements to pheromone-controlled biodiversity in species from microbes to humans we see this: You’re trying to explain a random phenotype by looking for a randomization mechanism in the genome. No one will…

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Virucidal effects on ecological speciation

An Adaptor Hierarchy Regulates Proteolysis during a Bacterial Cell Cycle Abstract excerpt: …additional factors are inexplicably required for cell-cycle-dependent proteolysis. Here, we show that these factors constitute an adaptor hierarchy wherein different substrates are destroyed based on the degree of adaptor assembly. Abstract conclusion: Our work reveals how hierarchical adaptors and primed proteases orchestrate regulated proteolysis during bacterial cell-cycle progression. My comment:  The use of the term “adaptor hierarchy” brought this article to my attention. The term “adaptor hierarchy” is…

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Protein isoforms do not evolve

This Is My Vision Of “Life” A Conversation With Richard Dawkins [4.30.15] Introduction by: John Brockman Excerpt: Through the amazing set of posttranscriptional mRNA processing mechanisms uncovered in the last 40 years (including alternative splicing and RNA editing), transcription of a single gene often results in the production of many distinct protein isoforms with very different functional roles. Popper Versus Bacon A Conversation With Peter Coveney [5.7.15] Introduction by: John Brockman Excerpt: I will perform the right number of experiments…

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Reverse phosphorylation

See for review: Let there be anti-entropic light (1)   Squid are hyper-editors when it comes to RNA This is a great summary of what is currently known about anti-entropic light and nutrient-dependent RNA-mediated pheromone-controlled cell type differentiation. Excerpt: “During RNA editing, specific enzymes alter nucleotides in mRNA transcripts so that the resulting protein differs in amino acid sequence from what was encoded by the original DNA. Such RNA editing is a means to generate greater protein diversity…” The RNA-editing…

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RNA-protein interactions reveal biophysical to ecological landscapes

Quantitative analysis of RNA-protein interactions on a massively parallel array reveals biophysical and evolutionary landscapes RNA-protein interactions are tethered to DNA via ultra-high-throughput measurement of the RNA-protein interactions that link amino acid substitutions to cell type differentiation. Differences in affinity are often driven by sequence-specific changes in both association and dissociation rates that rapidly link bio-physical constrained RNA-mediated protein folding to models that provide “…generalizable insight into the biophysical basis and evolutionary consequences of sequence-function relationships.” This is the generalizable…

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Intelligent viruses and cancers?

The Very Intelligent Ebola Virus Takes Front and Center Excerpt 1) “Ebola doesn’t enter the nucleus. It uses the cell’s machinery of ribosomes and transfer RNA to make proteins from the viral messengerRNA.” Excerpt 2) “Normally, mechanisms inside the nucleus have complex relations with messenger RNA and the alternative RNA editing process (see RNA alternative editing post). Specific protein complexes help splice the messengerRNA before it is sent from the nucleus to the ribosomes in the cytoplasm to make proteins.”…

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