But are there enough events since the universe formed to account for the ATP Synthase?
If every particle in the observable universe [1 × 10 to the 90th power] was an event that occurred every Planck second [5.4 × 10 to the 44th power] since the beginning of the universe [4.32 × 10 to the 17th power - in seconds] there would be a max of 2.3328x10^152 events since the beginning of the universe.
Also, there are vastly more ways of arranging nucleotide bases that result in non-functional sequences of DNA, and vastly more ways of arranging amino acids that result in non-functional amino-acid chains, than there are corresponding functional genes or proteins. One recent experimentally derived estimate places that ratio—the size of the haystack in relation to the needle—at 10^77 non-functional sequences for every functional gene or protein.
And we have many, many different kinds of these micromachines in our bodies. For instance, the ATP Synthase, the dual motor pump mentioned earlier, is part of the Electron transport chain; four other DNA based, multiple part micromachines.
Sorry, but the math just doesn't hold up for a purposeless, unintentional unguided process without a goal for all those necessary genetic changes in multiple proteins in multiple organs that needed to for the fish to amphibian transition. Not to mention all necessary genetic changes in multiple proteins in multiple organs for the 20 to 35 of the major phyla in the Cambrian explosion.
DNA as information and a language.
In modern biology and information theory, DNA is considered to be literal information, not just a metaphor. Computers use a binary code (0 and 1) to store data. DNA uses a quaternary (Base-4) code. The "meaning" of the DNA is not determined by the chemical properties of the sugar-phosphate backbone (the physical medium), but solely by the sequential arrangement of these bases. This is identical to how the meaning of a software program is determined by the sequence of code, not the silicon of the chip.
DNA follows specific rules to be read by the cell. DNA follows a strict set of rules that dictates how the information is read, similar to grammatical rules in human language. The cell reads DNA in groups of three bases called codons. For example, GCA is the command for the amino acid Alanine. This is a fixed "word length" syntax. The cell machinery does not read one base or two; it reads exactly three.
Just as sentences have capitalization and periods, DNA has specific instructions for "Begin reading here" and "Stop reading here." If these periods are missing or mutated, the cell produces a run-on protein that is usually dysfunctional. Because DNA is read in triplets, starting at the wrong letter shifts the entire "frame," turning a functional sentence into gibberish (much like how removing the "T" from "THE CAT" leaves "HEC AT...").
In English, the word "apple" stands for a red fruit, but there is no physical reason the letters A-P-P-L-E must represent a fruit. It is an agreed-upon convention. In biology, the codon AAA codes for the amino acid Lysine. However, the codon AAA does not physically look like Lysine, nor does it chemically react directly with Lysine.
On one end, the tRNA (a bridge between the genetic code on messenger RNA and the specific amino acids that build proteins) reads the code (AAA); on the other end, it carries Lysine. The cell uses a complex set of enzymes to ensure the right amino acid is attached to the right tRNA. This shows the relationship is symbolic: the cell "knows" that AAA means Lysine, essentially following a dictionary. This symbolic representation is a hallmark of information systems
Specific codons correspond to specific amino acids, which are the building blocks of proteins. DNA is a "blueprint" or "software program" that the cell's machinery reads to assemble functional proteins. These proteins, the machines built from the DNA blueprint, do almost all the work in your body.
This is correct to a point. Natural selection acts on the results of various genetic mutations. Traits that provide a survival or reproductive advantage in a specific environment become more prevalent in the population because individuals with those traits are more likely to survive and reproduce, passing on their genes.
Biased: An outcome that is weighted or "steered" in a specific direction. It is not purely chaotic; certain results are favored over others due to constraints or external forces.
It's true that the genome uses chemical markers on DNA and DNA packaging (wrapping around histone proteins) to flag critical areas to recruit DNA repair machinery, this does not help show that naturalistic evolution is the best explanation. To have protection zones in DNA seems like a hallmark of design. That's why a military plane, like the A-10 Warthog, can come back all shot to hell, because none of it vital parts were hit. That is by design!
Please don't say that design [purposeful, intentional guided process with a goal] is unscientific, since:
A God of the Gap argument assumes an act of God as the explanation for an unknown phenomenon. But I’m not citing an unknown phenomenon or a gap in our knowledge. I am using the inference to the best explanation and citing what we do know about DNA, the difference between fish and amphibians, in order to choose between design [purposeful, intentional guided process with a goal] over a purposeless, unintentional unguided process without a goal.
There are abundant scholarly sources that explicitly define DNA as information or instructions.
Central Dogma of Molecular Biology - talks about information or instructions in the cell: The flow of genetic information in a cell is from DNA to RNA to proteins. This paper clearly states the scientific conclusion that DNA is a code/blueprint and that the particular order of its bases is where the information/data for constructing the organism is stored.
Molecular Biology of the Cell Quote: "The complete set of information in an organism's DNA is called its genome, and it carries the instructions for all the proteins the organism will ever synthesize. It clarifies that biologically, the information in DNA is not a metaphor, but a literal instruction set for synthesizing proteins, which are the physical machinery of the cell.
The Major Transitions in Evolution Revisited - They categorize the history of life into major transitions (e.g., from single cells to multicellularity) and define these transitions by how "genetic information is organized and transmitted." This source moves beyond simple cell mechanics and argues that the history of life is essentially a history of information processing and storage improvements.
Here's a simple breakdown:
DNA (The Blueprint): Stored in the nucleus, DNA contains the complete genetic code for all the proteins your body needs.
Transcription (Copying the Recipe): A specific gene (protein recipe) is copied from DNA into messenger RNA (mRNA).
mRNA (The Delivery Truck): This mRNA copy travels out of the nucleus to the cytoplasm.
Ribosomes (The Protein Factory): These organelles read the mRNA sequence.
Translation (Building the Protein): Transfer RNA (tRNA) brings amino acids (the building blocks) to the ribosome, which links them in the correct order, creating a protein
See The Language of Genes - David Searls, a pioneer in computational biology, wrote this landmark paper for Nature. He argues that the tools used to analyze human language (linguistics) are mathematically identical to those needed to analyze DNA. He explicitly uses "syntax" and "grammar" to describe how DNA is structured. Not only that, but he compares the arrangement of genes to sentence structures, showing that DNA has a hierarchical grammar where "nouns" (genes) and "verbs" (regulatory elements) must be placed in a specific syntactic order to function. He demonstrates that DNA is not just a linear string of data but has a "context-free grammar" (a specific type of linguistic structure in the Chomsky hierarchy), allowing for complex dependencies similar to nested clauses in English.
See also The linguistics of DNA: words, sentences, grammar, phonetics, and semantics
Linguistic Terms Used: Words: Codons (groups of 3 bases); Sentences: Genes (strings of codons that form a complete thought/protein); Grammar: The chemical rules that dictate how these "words" can be combined. The author argues that this is **not** merely a poetic analogy but a distinct mathematical similarity between the structure of human language and the structure of the genetic code.
DNA-Binding Specificities of Human Transcription Factors - The researchers found that proteins (transcription factors) read DNA not just as individual letters, but as words and compound words. They discovered that when two proteins bind to DNA sequence together, they don't just sit next to each other; they alter the binding instructions, effectively creating a compound word with a new meaning, similar to how joining fire and fly creates firefly, which is distinct from the two separate words.
Thus, we have plenty of scholarly research that shows DNA as a literal language with grammar, syntax, punctuation, and words.
For comparison, the number of possible ways to order a pack of 52 cards... is 8×10^67.... essentially meaning that a randomly shuffled deck has never been seen before and will never be seen again in our lifetime.
Note 2: 2.3328x10^151 takes into account the entire observable universe, but it's difficult to believe that particles outside the earth would affect evolution. Also, it's calculated from the beginning of the time [13.8 billion years] not the beginning of life [3.5 billion years], so the amount of total events for evolution of life is much smaller. Somewhere around 2.5x10^61.
Note 3: The numbers used for the amount of particles in the universe, the Placnk second, seconds since the Big Bang are from The Physics of the Universe's the Universe by the Numbers page
Additional info
We Have Been LIED TO About Origin Of Life (Renowned Organic Chemist Speaks Out) [Video]
Finding God through science – an atheist discovers chemical evolution can’t adequately explain the origin of life [Article]
Scientist Explains HUGE Mathematical Problems For Atheism [Video]
Scientists Are Changing Their Minds (EVIDENCE For God!) [Video]

