Chemistry Is Weird

Despite the fact that most of us were exposed to the subject in high school, I’d wager that 99.99% of us don’t give a passing moments thought to the reality in our world, the reality which makes you, you – chemistry. Yet, even if you did chemistry in high school, you probably never gave a passing moments thought to how weird chemistry really is. Weirdness aside, chemistry works. We all rely on that, except when it comes to the chemistry that rules the roost of that brain thingy of yours.

Chemistry is really weird if you stop and think about it. The basics from the ground up, those fundamental constituents, protons, neutrons and electrons, have the properties of charge, mass and spin and presumably exist in a solid state at STP (standard temperature and pressure) or otherwise. In other words, they have none of the properties, apart from mass, associated with any of the properties associated with the chemical elements (like being other than a solid, liquid or gas at STP (standard temperature and pressure); having colour;

Given those elementary particles, if you start to pile them up, well charge plus charge equals a greater or lesser overall charge; mass plus mass equals more mass; spin plus spin – well I’m not sure spin is a property that can be added or subtracted.

If it could be so arranged, but we’ll make it so since this is a thought experiment, a baseball-sized collection of electrons or neutrons or protons at STP would obviously have mass, and a lot of electric charge in the case of protons and electrons. But what would the colour be? What would it taste like? What would it smell like? What would it feel like? These are unanswered and probably unanswerable questions.

But assemble these fundamentals in various combinations and all of a sudden you do get all of the elements with their associated colours and tastes and so on. That’s a bit weird for starters.

How many atoms of gold (for example but any other element would do) have to come together or be assembled before you have the properties of gold? It surely has to be more than one atom worth surely. 

But even weirder is when you start to combine the various elements with associated properties into molecules that have properties totally unlike the parent elements. You have hydrogen and oxygen as dry gases at STP that make water which is wet and liquid at STP. Silicon is a solid at STP and Carbon is a solid at STP, and Oxygen is a gas at STP, but Carbon Dioxide is a gas at STP whereas Silicon Dioxide (sand) is a solid at STP, yet Carbon and Silicon are like mother and daughter in terms of similarity. Then you have Chlorine, a poisonous yellow gas at STP, and Sodium, which is a solid shiny metal at STP, and volatile enough such that if you swallow any you will really do yourself a very serious mischief. However, Sodium Chloride is just pure table salt and a compound your body requires to survive and thrive!

Carbon isn’t a poison, Oxygen you can breathe, but you’d die in a pure Carbon Dioxide environment, or even in a pure Carbon Monoxide environment.

All of chemistry is deterministic and predictable, both inorganic and organic, with the apparent exception of brain chemistry, which I’ll get to shortly. 

You’d think chemistry would be straightforward, but chemistry can act in rather weird, even unpredictable ways. I mean, if you have an atom of Sodium and an atom of Chlorine, you get a straight-forward molecule of table salt (salty). If you have two atoms of Hydrogen and one atom of Oxygen you get, in a straightforward fashion, a molecule of water at STP (wet). Combine Carbon, Oxygen and Hydrogen in a certain way and you get sugar (sweet). Another arrangement can give you chlorophyll (green).

Now how is this weird? Well, the basic constituents, protons, electrons and neutrons aren’t salty, wet, sweet or green. Sodium and Chlorine atoms aren’t salty; table salt is salty. Oxygen and Hydrogen atoms aren’t wet at STP; water is wet at STP. Carbon, Oxygen and Hydrogen atoms aren’t sweet; sugar is sweet. The constituent atoms comprising the chlorophyll molecule (Carbon, Oxygen, Hydrogen, Nitrogen and Magnesium) aren’t green; chlorophyll is green. 

So how do the properties of saltiness, wetness, sweetness, greenness, arise from those constituents that don’t have those properties? It’s not quite as strange as getting something from nothing or something happening for no reason at all, but nevertheless IMHO something’s screwy somewhere. And enigmas like these all lead back to that most fundamental of all issues – what is reality?

Or take another case – Carbon. You’d think Carbon is Carbon is Carbon, but no. Carbon can be charcoal or coal; Carbon can be graphite; Carbon can be a diamond. The various properties of these substances, all just Carbon, drastically differ. Chemistry is indeed weird.

Let’s re-ask the question: How do properties (like charge, spin, mass or presumably being either a solid liquid or gas depending on how you vary temperature and pressure) that all matter (like the fundamental particles, the building blocks of atoms/elements, in turn the building blocks of molecules/compounds) has, morph into properties that only some kinds of matter have, like sweetness, transparentness, hardness, colour, malleability, etc. or properties drastically different from their constituents – like two gases making a liquid.

I’ll just note here that while the fundamental particles, the atoms/elements and molecules/compounds have specific properties, composites like humans do not. The human body for example is collectively a solid, a liquid and a gas. Actually I don’t even tend to think of the human body as an organism but rather a colony composed of billions of micro-organisms, both the cells that make you up as well as all those other microbes that your body plays host to. But that’s an aside.

Speaking of the human body, the body (including the brain and therefore the mind) is one huge chemical processing factory. What goes in is not the same as what comes out!

When it comes to the most of your bodily bits and pieces, your body chemistry is pretty damn deterministic. You breathe in Oxygen and out will come Carbon Dioxide. If you eat X today, your digestive juices process it in the same way as when you ate X the week before. You expect your liver chemistry to detoxify those beers you had with the boys last night. If you take medication, whether it is prescription or self prescribed, you count on the fact that X + Y = Z yesterday, today and tomorrow. If your doctor prescribes various blood and/or urine tests, there’s an extremely high degree of expectation that the results of those tests will exhibit enough absolute certainty for the doctor to then follow-up on, and you will have confidence in that follow-up.

The brain is just a soup vat of chemicals, organic chemicals and bio-chemicals, but chemicals all the same. Therefore anything and everything rooted within the confines of the brain is rooted in chemistry. 

But it is absolutely amazing what chemistry can accomplish when it is part and parcel of your brain chemistry. Things don’t seem quite as deterministic then. Your brain chemistry holds sway over your sensory inputs, memory, desires, emotions, creativity, etc. and we know that those sorts of attributes in humans can be pretty unpredictable.

Still, perhaps one afternoon you smell (sensory input) your next door neighbour’s southern fried chicken cooking which then triggers off a whole potful of internal responses, all triggered in turn by your brain chemistry. The chain reaction might start off by all of a sudden feeling hungry (desire) then remembering (memory) that frozen chicken you have in the freezer and how it has been quite a while since you had a good finger-lickin’ chicken dinner but you’ll need to pop into the corner store to pick up some of those 57 herbs and spices. But then you get an inspiration (creative thought) to stuff the chicken as you would a turkey and forgo the Colonel’s secret recipe, even though you get all teary-eyed (emotions) when you recall how your significant other proposed to you at your local KFC outlet following the senior prom: all that from what’s basically just chemicals doing their chemical thing.  

If you recall something (as per the above example), presumably matter and energy are interacting since there’s no such thing as a free lunch. You don’t get something, in this case memory recall, for nothing – at no cost to you. But how can chemistry result in memory? Chemicals are products. Chemical reactions (those matter-energy interactions) produce new chemical products. Does that make memory a product (and ditto all those other nebulous mental ‘products’ like emotion, desire, morality, and creativity)? Computer memory recall isn’t chemistry of course – there aren’t any chemical reactions going on in your PC – but rather physics (energy expenditure moving electrons around, etc.) Anyway, laptops (to date anyway) don’t have those other nebulous human (and animal) traits like emotion, desire, morality, and creativity that are presumably chemistry driven. But there is more to the anomalies of brain chemistry that just equating a memory or creativity with a chemical, if in fact the two can be equated at all.

Actually I can’t accept the proposition that a molecule (however complex) can equal a memory or be a new creative idea. There must be trillions and trillions of unique memories and creative thoughts (that probably become memories) stored within the brains of the collective of human and animal societies, yet that number would vastly outnumber the possible combos of types of molecules available. It would appear that there has to be more to memory and creativity than just chemistry – it would appear so, but is it so? 

How is it that you can ‘train’ your brain chemistry to wake you up at a certain time – no alarm clock – and it doesn’t matter what time you went to sleep and how many hours of sleep you actually had? How is it that your brain chemistry likes one piece of music but not another piece, or how you can turnoff liking a particular piece of music that used to be your favourite, or type of food, or type of animal – the list is endless. How can your brain chemistry remember X one day, but not the next day? Presumably that creative thought you had today could have been thought of yesterday but wasn’t – same brain, same chemistry (apparently), different results. How does your chemistry-driven feelings for your better half change over time? How come your brain chemistry can result in sexual arousal from viewing one image but not from another image? And it’s not just human brain chemistry either. Given seemingly identical circumstances, my cats will not of necessity perform identical actions. I’m sure there is a logical chemically driven deterministic explanation, except that it’s all so complex and interwoven that it gives more the appearance of indeterminacy and free will. If 99.99% of chemistry is deterministic, I’m sure brain chemistry will prove to be also.



You and the Vacuum Energy

The electron, the proton and the quark are all entities within the realm of particle hence quantum physics. All three carry electrical charge. All three have mass. After those observations, things get interesting, or messy, depending on your point of view.

An electron has a negative charge exactly equal and opposite to that of a proton. Note: the charge is exactly equal, even though the proton has a far greater mass than the electron (some 2000 times heavier in fact, not that there has to be of necessity any relationship between mass and charge).

Now that’s strange since the electron is a fundamental particle but the positively charged proton is a composite particle, made up of a trio of quarks (as it the neutron with no net charge). The proton has two quarks each with a positive 2/3rds charge (up quark) and one quark with a negative 1/3^rd charge (down quark) for an overall balance of one positive charge. (The neutron on the other hand has one up quark with a positive 2/3rds charge and two down quarks each with a negative 1/3^rd charge, for an overall balance of zero charge – neither positive nor negative.)

Now you might suggest that an electron might be a fusion of a trio of down quarks, each with a negative 1/3^rd charge, except the electron, again, isn’t a composite particle, and the mass is all wrong for that scenario. If an electron were a composite of a trio of down quarks, each with a minus 1/3^rd charge, the electron would be thirty times more massive than it is – not something particle physicists would fail to take notice of. 

Further, the force particle that governs the electron is the photon; that which governs the quarks inside the proton and the neutron is the gluon, which further differentiates the two things – quarks and electrons. In any event, if you could have a composite particle of a trio of negative 1/3^rd down quarks, if that were the case, and it is the case, and it’s called the Negative Delta, you’d also need a composite particle that’s the fusion of a trio of positive 2/3rds up quarks for an overall charge of plus two. To the best of my knowledge there is only one such critter in the particle zoo and it’s called the Doubly Positive Delta. I’m sure you’ve never heard of these Delta particles, which goes to show how much bearing or impact they have on life, the Universe, and everything.

In case you were wondering, there would be an anti-quark of minus 2/3rds charge, and an anti-quark of a positive 1/3^rd charge, to yield an anti-proton and an anti-neutron. The anti-proton would of course have an equal and opposite charge to the anti-electron (which has a formal name – the positron). So things are equally as mysterious in the realm of the anti-world.

Question: How do you get 1/3^rd or 2/3rds of an electric charge in any event? Of course one could just multiply by three and that does away with the fractions, but that doesn’t resolve the larger issues, like for that matter, what exactly is electric charge and how does it come to be?

Presumably quarks inside of protons and neutrons, and electrons, could have taken on any old values of charge, separate and apart, but didn’t. Why? Is this evidence for a Multiverse (where anything that can happen does happen in all possible combinations); intelligent design (which does not of necessity imply a deity – just a creator, or a programmer); or just a coincidence?

Why is it so? What does it mean? Equal and opposite charges between the proton and the electron would just seem to be one of Mother Nature’s little mysteries.

But something else is odd here. The proton, as noted above, is 2000 times more massive than the electron, but if you weigh up the trio of quarks* that make up the proton, the proton should only come in at roughly 20 times that of an electron. That’s 100 times too small. So where does the other 1980 bits of mass come from? Well the gluon that holds the proton’s (and the neutron’s) quarks together, like the electron’s photon and gravity’s (theoretical or hypothetical) graviton, have no rest mass that add to the total. But the internal jiggling of the quarks and their gluon companions does add a bit more mass to the proton. Remember that motion equals energy which equals mass. Finally, that leaves the vacuum energy to fill the remaining gap.

Vacuum energy: what’s that? There’s no such state as zero energy, so there’s energy around even where you don’t expect it – like in a vacuum. If you have a finite amount of energy in a finite volume, you cannot dilute that amount of energy such that you end up with no energy present. That’s a violation of fundamental conservation laws. So this vacuum energy is present everywhere and experimentally confirmed so that’s not an issue to be debated. The next bit is to recall that Einstein’s famous equation relates the equality between energy and mass. Mass can be converted to energy and energy can be converted to mass. So this vacuum energy can produce what’s known as virtual particles, which exist for nanoseconds (actually way less than that) before recombining, going poof, and returning to the environment again as energy.

Everywhere, anywhere, all the time, these virtual particles pop into and out of existence – your basic transformation of energy into matter (mass) and back to energy again. Again, matter and energy are two sides of the same coin. A little bit of mass can create a lot of energy as the atomic bomb; a lot of energy can create a tiny bit of mass, and virtual particles are tiny, so it doesn’t take much energy to manufacture them. As you might expect, it’s cheaper (uses less energy) to create virtual ‘ping pong balls’ than virtual ‘bowling balls’, and so you get way more of the lighter particles created than the heavier ones. Further, the heavier they are the quicker they go poof again. Not that it ultimately matters but these pop-in pop-out events transpire so quickly that not even the finest and most accurate of Olympic timers could measure their duration. Quantum’s vacuum energy’s virtual pop-in pop-out is all over in the blink of a blink of a blink of a blink (add some more blinks) of an eye.

Oh, one other thing to note, when the vacuum energy creates these virtual particles, they are created in pairs – matter-antimatter pairs to be precise. Now why, when virtual particles are created are they in that form? Matter-antimatter pairs are the only viable way of returning to the vacuum energy the energy that was ‘borrowed’ to create the particles in the first place. It’s like borrowing money from the bank. You’ve got to repay it. If the vacuum energy created, say a pair of electrons, well the energy debt couldn’t be repaid since two electrons can’t annihilate each other back to pure energy. The bank’s money wouldn’t be repaid and there’d be hell to pay instead!

This constant froth and bubble is commonly called quantum fluctuations or the quantum jitters. All that activity, those virtual matter-antimatter particles, completely accounts for the missing mass – the differential between the proton’s quarks’s mass and the proton’s mass. In a similar way, presumably all matter is more massive as a result of these quantum jitters that take place in the vacuum energy, jitters which even permeate the insides of protons and neutrons. So, and I hope you’re sitting down while reading this, a large part of your mass is due to the jittery happenings of the vacuum energy!  

Given the above, I can’t help now but wonder what affect this constant froth and bubble, the quantum jitters, has on the biological body – your biological body. In theory, barring external agents like accidents, there is no real reason why we should age and die. Some diseases are obviously caused by outside agents like bacteria and viruses, but others have more mysterious origins. There are external agents like smoking, alcohol, radioactivity and ultraviolet light which can have detrimental effects. But if you exclude all nasty external agents, why would we age and ultimately snuff it?

The body, your body, my body, your pet’s body, is ultimately a composite of the fundamental particles that make up life, the universe and everything. These fundamental or elementary particles are subject to quantum phenomena. These particles have a volume for those phenomena to operate in. Even in space external to those particles, quantum phenomena operate all the time, anywhere and everywhere. The vacuum energy isn’t somewhere ‘out there’ in never-never-land. It’s everywhere including inside you from head to toe. Virtual particles are being created and destroyed inside you even as you read this, like it or not. All of this too-ing and fro-ing, the constant creation of virtual particles and hence their annihilation (literally a matter-antimatter annihilation) – energy to matter and matter back to energy – must have some sort of wear and tear on biological systems starting at the quantum or micro level and moving on up the line. If something goes wrong at the micro level, it has an obvious ripple effect on up that line to the macro level. Perhaps modern medicine should pay closer attention to quantum and particle physics!

There are probably multi hundreds of thousands of monographs exploring and explaining the workings and maladies of the human body from conception to ultimate demise; from the whole of physiology and anatomy down to the individual organ systems (i.e. – digestive system, respiratory system, nervous system, etc.); the individual organs (stomach, lungs, spinal cord); the tissues that comprise these; the cells that make up the tissues and the biochemistry that works its magic inside the cells. But I doubt if you’ll find in any medical library too many tomes on particle and quantum physics. Yet without particle and quantum physics there could be no cellular biochemistry on up to gross physiology and anatomy.

If all those quantum jitters, those now-you-see-them now-you-don’t virtual particles consisting of matter-antimatter annihilations inside you weren’t bad enough, the micro world isn’t quite through with you. You’re being bombarded 24/7/52 by millions of cosmic rays and neutrinos every second, though fortunately nearly all pass right through you as if you didn’t exist at all. However, the same can’t be said for those matter-antimatter annihilations. There’s no way I can see the creation and destruction of virtual particles (in matter-antimatter pairs) having any beneficial effect on your body, hence my postulating that these quantum jitters might have some, even if partial, effect on some diseases, infirmities, the ageing process, even ultimately death.

There’s no point is worrying about this for there’s not a damn thing you or anyone, not even your family doctor or a particle physicist, can do about it.        

The one saving grace is that the virtual energy is 120 orders of magnitude less than theory predicts, otherwise you and the Universe would be ripped apart – well actually you and the Universe would never have formed in the first place.

*There is some degree of uncertainty in the exact mass of those various quarks because they cannot be weighed in isolation. However, the estimates are probably pretty close to the mark. The error bars aren’t that great.