Molecule of the Day

Molecules: You’d Better Learn to Live With Them

  • Subscribe

Archive for April, 2006

Indole (Fragrance Hero or Fecal Zero?)

30th April 2006

How smell works is one of those things we’re chipping away at, but we just don’t have it worked out yet. There is a prevailing theory. There are also some less popular but still intriguing newcomers being put forth by…intriguing newcomers. A predictive theory of smell eludes us - given a structure, we can make some guesses as to how it’s going to smell, but they’re pretty crude: sulfur stinks. Gee, thanks. It’s not quite that bad, but close.
Olfaction is also unique because a Nobel was issued for working out how every other sense works, long before that for smell. Richard Axel and Linda Buck’s smell Nobel was for working out the genes encoding odor receptors. A predictive theory of the relationship between chemical structure and odor remains elusive. Until we get it figured out, we will have plenty of weirdoes in the odorant world. After we get it figured out, well, they’ll still be weirdoes, but at least we’ll understand them and be able to relate to their stinky plight. One such rascal is indole.
Read the rest of this entry »

Posted in Biology, Medicine, Stinky, Perfumey | 2 Comments »

Corundum (You can call me Al)

29th April 2006

Corundum is a funny one. It is aluminum (III) oxide, or Al2O3. This means that it is composed of aluminum atoms, three electrons shy of the zero oxidation state (the shiny, silvery, regular metal). You could also call this an Al3+ compound, instead of an aluminum (III) compound. The charge is balanced by the oxygen (-2) atoms. In a crystal, it looks like this:

Corundum

The funny thing about corundum is, when you have it in a clean single crystal, you get something much different. You know them as sapphires

Read the rest of this entry »

Posted in Inorganic | No Comments »

Guanine (Fish eyes, or bat pies?)

28th April 2006

Guanine is one of the five aromatic bases that make up the genetic code. They are listed below:
DNA Bases
Why would one be more interesting than the others? Well, guanine ends up being the weird one in a bunch of ways…

First of all, it’s not very soluble. Yesterday’s molecule, cyclodextrin, showed some examples of how solubility could modulate things like how poisonous a substance is. Neither of the purines are terribly soluble (the purines are the larger bases; guanine and adenine). One of their metabolites is uric acid. This has terrible solubility as well, and it deposits in the joints in gout. Some animals that have to conserve water will excrete solid urate - birds, for example, and bats. Bat feces — or guano — are rich in both urate and guanine. It is from guano that we get the word guanine.

Posted in Food, Biology, DNA, Medicine | No Comments »

Beta-Cyclodextrin (Relaying the Pharmacophore, or Showing Odor the Door?)

27th April 2006

Here is a molecule you’ve probably used, especially if you happen to be of that type of person who never does laundry. Cyclodextrin is what’s known as an cyclic oligomer of glucose molecules. The cyclic part means that it forms a ring, and “oligomer” means a repeating series of the same molecule. It’s different from a polymer in that it’s smaller. The difference between “oligomer” and “polymer” is not well-defined, but a good general rule is: if you can count the number of monomers (glucose subunits), it’s probably better termed “oligomer.” This is the structure of glucose:

Glucose
Glucose

The important thing to note here is that there are a number of hydroxyl groups (-OH) bound to carbon. The bond between carbon and oxygen is quite polar, as is that between oxygen and hydrogen. This means that it will tend to dissolve in polar liquids — water! So, this isn’t that much of a surprise: sugar dissolves in water.

Read the rest of this entry »

Posted in Drugs, Hygeine, Biology, Stinky, Perfumey | No Comments »