1. Backgrounds of Amino Acids
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This page explains what amino acids are, concentrating on the 2-amino acids that are biologically important. It looks in some detail at their simple physical properties such as solubility and melting points.
Structures and names
Amino acids are exactly what they say they are! They are compounds containing an amino group, -NH2, and a carboxylic acid group, -COOH. The biologically important amino acids have the amino group attached to the carbon atom next door to the -COOH group. They are known as 2-amino acids. They are also known (slightly confusingly) as alpha-amino acids. These are the ones we will concentrated on.
The two simplest of these amino acids are 2-aminoethanoic acid and 2-aminopropanoic acid. Because of the biological importance of molecules like these, they are normally known by their traditional biochemical names. 2-aminoethanoic acid, for example, is usually called glycine, and 2-aminopropanoic acid is usually known as alanine.
The general formula for a 2-amino acid is:
. . . where "R" can be quite a complicated group containing other active groups like -OH, -SH, other amine or carboxylic acid groups, and so on. It is definitely NOT necessarily a simple hydrocarbon group!
The amino acids are crystalline solids with surprisingly high melting points. It is difficult to pin the melting points down exactly because the amino acids tend to decompose before they melt. Decomposition and melting tend to be in the 200 - 300°C range. For the size of the molecules, this is very high. Something unusual must be happening. If you look again at the general structure of an amino acid, you will see that it has both a basic amine group and an acidic carboxylic acid group.
There is an internal transfer of a hydrogen ion from the -COOH group to the -NH2 group to leave an ion with both a negative charge and a positive charge. This is called a zwitterion.
A zwitterion is a compound with no overall electrical charge, but which contains separate parts which are positively and negatively charged. This is the form that amino acids exist in even in the solid state. Instead of the weaker hydrogen bonds and other intermolecular forces that you might have expected, you actually have much stronger ionic attractions between one ion and its neighbors. These ionic attractions take more energy to break and so the amino acids have high melting points for the size of the molecules.
Amino acids are generally soluble in water and insoluble in non-polar organic solvents such as hydrocarbons. This again reflects the presence of the zwitterions. In water, the ionic attractions between the ions in the solid amino acid are replaced by strong attractions between polar water molecules and the zwitterions. This is much the same as any other ionic substance dissolving in water. The extent of the solubility in water varies depending on the size and nature of the "R" group. The lack of solubility in non-polar organic solvents such as hydrocarbons is because of the lack of attraction between the solvent molecules and the zwitterions. Without strong attractions between solvent and amino acid, there won't be enough energy released to pull the ionic lattice apart.
If you look yet again at the general formula for an amino acid, you will see that (apart from glycine, 2-aminoethanoic acid) the carbon at the centre of the structure has four different groups attached. In glycine, the "R" group is another hydrogen atom.
This is equally true if you draw the structure of the zwitterion instead of this simpler structure.
Because of these four different groups attached to the same carbon atom, amino acids (apart from glycine) are chiral. The lack of a plane of symmetry means that there will be two stereoisomers of an amino acid (apart from glycine) - one the non-superimposable mirror image of the other. For a general 2-amino acid, the isomers are:
All the naturally occurring amino acids have the right-hand structure in this diagram. This is known as the "L-" configuration. The other one is known as the "D-" configuration. If you read around the other groups in a clockwise direction, you get the word CORN.
You can't tell by looking at a structure whether that isomer will rotate the plane of polarisation of plane polarised light clockwise or anticlockwise. All the naturally occurring amino acids have the same L- configuration, but they include examples which rotate the plane clockwise (+) and those which do the opposite (-).
It is quite common for natural systems to only work with one of the optical isomers (enantiomers) of an optically active substance like the amino acids. It isn't too difficult to see why that might be. Because the molecules have different spatial arrangements of their various groups, only one of them is likely to fit properly into the active sites on the enzymes they work with.