PROTEINS MOVE LIKE MACHINES

Surprise, surprise! ScienceDaily.

They are machines, logical machines. Smart logical machines.

DNA CAN RECOMBINE TO MAKE NEW SPECIES

Researchers have shown how broken sections of DNA to change genomes and spawn new species, reports ScienceDaily.

IN LIFE WATER IS MORE THAN WATER

'Water, as we know it, does not exist within our bodies. Water in our bodies has different physical properties from ordinary bulk water, because of the presence of proteins and other biomolecules. Proteins change the property of water to perform particular tasks in different parts of our cells.' Full ScienceDaily report here.

ATP ADP CYCLING NOW SIMULATED

Powerful software has for the first time simulated the detailed mechanics of the process in which ATP is cycled back to ATP after being converted to ADP when it releases a phosphate group--the process that provides the energy for most cellular functions.

Details in this ScienceDaily article.

AN EMBRYO IS EVOLUTION ON FAST-FORWARD

Evolution is the slow, intelligent increase in complexity via molecular processing over the aeons, starting with single cells and culminating in human beings.

Without evolution the development of the embryo would be impossible, because it too begins with a single cell and via the same intelligent molecular processing develops into an organism--for a human in only twelve weeks. That development is just evolution on very fast fast-forward. The process that was worked out over the aeons and perfected over the aeons can now take place at high speed.

Without the intelligent process of general evolution humans could not exist. Without the intelligent process of specific evolution humans could not be born. Both the evolution of all species across all time to produce humans at the apex, and the evolution of the individual human across the individual's time, are equally necessary.

ATP-ADP CYCLING NOW SIMULATED

Powerful software has for the first time simulated the detailed mechanics of the process in which ATP is cycled back to ATP after being converted to ADP when it releases a phosphate group (the process that provides the energy for most cellular functions).

Details in this ScienceDaily article.

CHEMISTRY IS...

Chemistry is the logic of matter and forces at atomic and molecular level.

CELLS ARE FULL OF SWITCHES

Surprise, surprise! Analysis with a supercomputer has found thousands of molecular switches in cells (see the full article in ScienceDaily).

But the researchers' assumption that 'evolution might stumble upon a switch' overlooks the obvious--that it processed its way to making a new one because it calculated a need for it.

Ditto the insertion, deletion and transfer of segments of DNA in organism. The processing over large timescales with low-power molecular-logic machines is slowly working things out.

Bio-molecular logic is a self-programming, self-modifying, self-improving, self-exploratory, self-analysing network of molecular machines beavering away at the base of an organism.

RESEARCHERS WATCH RNA MACHINES WORKING

Researchers have reported that they are the first to observe the dynamic, ratchet-like movements of single ribosomal molecules in the act of building proteins from genetic blueprints--reports
ScienceDaily.

The astonishing accuracy and complexity of the system is ahown in another ScienceDaily article, which describes how it not only selects the right molecules but can reject wrong ones, even discriminating between ones that are little different.

Life's superb machinery at work.

HUMAN INTERACTOME KEY TO UNIQUENESS

A new study indicates that the interactions between proteins, dubbed the human interactome in humans, could hold one of the keys to what makes organisms unique--not genetic makeup alone, reports ScienceDaily.

That should not be surprising. The processing power of a large network, both its processing power in real time and over a long period through many generations, is far greater than that of a smaller one. There will therefore be greater diversity in evolutionary development and in life's day-to-day actions and reactions.

WHY DO WE SEARCH FOR BETTER WAYS?

Question: Why is the brain constantly learning and searching for better ways of doing things?

Answer: Because the intelligent biological molecules at the base of our physical being are doing the same thing.

The difference is that the brain, having the combined processing power of myriad molecules and neurons, does it at stupendous speed. They do it over the aeons, constantly perfecting cells, organs and organisms.

So they have two functions. In real time they process real-time matters, the low-level processing without which we cannot function. In aeon-time they process better organisms.

SILENT GENES ARE WHISPERING

Genes previously thought to be off are actually functioning at a low level, with unknown effect, reports ScienceDaily.

LOGICAL DEVICES AND LIFE

LOGICAL DEVICES

The atom is a logical device. It is built of various particles of energy that have a logical relationship with each other and a logical influence on each other. Collectively they form a logically functional unit from whtih larger logically functional units can be built. The logical power of the super-structures (the molecules) increases exponentially with the number of units they contain.

Some types of atoms are particularly well-suited to forming powerful molecules, notably carbon, hydrogen, oxygen, phosphorus, etc.

Life is the ultimate logical construct.

MORE EVIDENCE OF THE BIO-LOGICAL HIEARCHY

These articles in ScienceDaily, one about molecular communication the other about cellular communication, show that we are starting to zero in on the details of basic biological functioning.

'Biological' turns out to be a nice pun. It is indeed the logical functioning of life: bio-logical.

We have also managed to film an electron going about its business.

Perhaps we shall one day be able to figure out how the hierarchy of the logic of life works, all the way up from the electron, or lower, right up to the intelligent molecular machines and the networks of them on which our cells are founded.

FOOD CHANGES US

We are what we eat, as this study shows. The biolmolecular logic is changed by diet, clearly one of the factors that it adapts to as it processes over the aeons.

DANCING WATER CHANGED BY PROTEIN FOLDING

This blog speculated in an earlier posting that water might be used by proteins for more than just lubrication, that there might be an intelligent use. Now research using terahertz spectroscopy gives some evidence for that. But even without the empirical science it is reasonable to think that the modifications described are not meaningless accidents, so there may well be a signalling aspect.

THE MOLECULAR PROCESSING OF EVOLUTION

As the organism grows and learns, so do its biomolecules, adjusting at the fundamental level to its behaviour and interaction with the environment.

Thus the proto-bird flaps its proto-wings to help speed it from a predator, and its molecules begin the long, multi-generational changes to feathers, bone, etc., and creation develops in defiance of the Second Law of Thermodynamics. Organisation, driven by fundamental intelligence--a myriad of smart nanonmachines--triumphs over disorganisation.

The slow calculation of the aeons, ever filtering and improving, generation after generation, just as the brain processes thoughts and arrives at the best conclusions, but far slower, because the processing power is far less.

A feedback-loop, back and forth between the basic molecular machines and the full organism, IS ever refining, adapting, living...

MAGNETIC CONTROL OF MOLECULAR MACHINES

This ScienceDaily story details an exciting, new, magnetic way of controlling cellular molecules. The effect is the same as when drugs or other molecules bind to the same molecules.

The mechanical method has exactly the same effect as the 'chemical' one. That could only happen if the cellular molecules are machines. QED.

THE LOGIC AND TRUTH OF BEING

We are founded on logic, on the truth of our being. When we betray logic and truth we not only betray what we are we also damage its fundamental functioning and structure, and the result is physical and mental unease or disease.

MACHINES OF BEING

Body molecules--DNA, proteins, etc--are machines, not reagents.

So traditional pharmaceuticalists are like sculptors who think they are modifying sculptures but are actually blundering mechanics trying to modify an engine without realising that it is an engine, have never seen one running, and have no notion that it is or of how it is.