CHEMISTRY GLOSSARY

wavefunction    →   valna funkcija

Wavefunction (Ψ) is a mathematical function that gives the amplitude of a wave as a function of position (and sometimes as a function of time and/or electron spin). Wavefunctions are used in chemistry to represent the behaviour of electrons bound in atoms or molecules.

glycoside    →   glikozid

Glycoside is one of a group of organic compounds in which a sugar group is bonded through its anomeric carbon to another group via a glycosidic bond. The sugar group is known as the glycon and the non-sugar group as the aglycon. According to the IUPAC definition, all disaccharides and polysaccharides are glycosides where the aglycone is another sugar.

In the free hemiacetal form, sugars will spontaneously equilibrate between the α and β anomers. However, once the glycosidic bond is formed, the anomeric configuration of the ring is locked as either α or β. Therefore, the alpha and beta glycosides are chemically distinct. They will have different chemical, physical, and biological properties. Many glycosides occur abundantly in plants, especially as flower and fruit pigments.

The term glycoside was later extended to cover not only compounds in which the anomeric hydroxy group is replaced by a group -OR, but also those in which the replacing group is -SR (thioglycosides), -SeR (selenoglycosides), -NR1R2 (N-glycosides), or even -CR1R2R3 (C-glycosides). Thioglycoside and selenoglycoside are legitimate generic terms; however the use of N-glycoside, although widespread in biochemical literature, is improper and not recommended here (glycosylamine is a perfectly acceptable term). C-Glycoside is even less acceptable. All other glycosides are hydrolysable; the C-C bond of C-glycosides is usually not. The use and propagation of names based on C-glycoside terminology is therefore strongly discouraged.

hemiacetal    →   poluacetal

Hemiacetals are organic compounds having the general formula R₂C(OH)OR’ (R’ ≠ H), derived from aldehydes or ketones by formal addition of an alcohol to the carbonyl group. Hemiacetals are generally unstable compounds. In some cases however, stable cyclic hemiacetals can be readily formed, especially when 5- and 6-membered rings are possible. In this case an intramolecular OH group reacts with the carbonyl group. Glucose and many other aldoses exist as cyclic hemiacetals whereas fructose and similar ketoses exist as cyclic hemiketals. Originally, the term was confined to derivatives of aldehydes (one R = H), but it now applies equally to derivatives of ketones (neither R = H).

ionic bond    →   ionska veza

Ionic bond is a strong force of attraction holding atoms together in a molecule or crystal. Typically chemical bonds have energies of about 100 kJ mol^-1. Ionic bond is a bond at which one of the participants, during the procedure of bonding, gives away its unpaired electrons to another atom so that both can achieve electron arrangement of the closest noble gas. In order to form an ionic bond one of the atoms must cross to the positively charged ion by losing certain number of electrons and the other atom must receive those electrons and cross to the negatively charged ion.

ligand    →   ligand

Ligand is an ion (F^-, Cl^-, Br^-, I^-, S^2-, CN^-, NCS^-, OH^-, NH₂^-) or molecule (NH₃, H₂O, NO, CO) that donates a pair of electrons to a metal atom or ion in forming a coordination complex. The main way of classifying ligands is by the number of points at which they are attached to, or bound to, the metal center. This is the denticity. Ligands with one potential donor atom are monodentate. Polydentate ligand is a ligand that is attached to a central metal ion by bonds from two or more donor atoms. Ligands with more than one potential donor atom are known as ambidentate, such as the thiocyanate ion, NCS-, which can bind to the metal center with either the nitrogen or sulphur atoms. Chelating ligands are those polydentate ligands which can form a ring including the metal atom.

linear molecular geometry    →   linearna geometrija molekule

Linear molecule is a molecule in which atoms are deployed in a straight line (under 180° angle). Molecules with an linear electron pair geometries have sp hybridization at the central atom. An example of linear electron pair and molecular geometry are carbon dioxide (O=C=O) and beryllium hydride BeH₂.

microscope    →   mikroskop

Microscope is an instrument that produces enlarged images of small objects. The optical microscopes (light microscope) use visible light and a system of lenses to magnify images. Typical magnification of a light microscope is up to 1500× ("1500 times")with a theoretical resolution limit of around 200 nm. Instead of using light, electron microscopes transmit a beam of electrons through, or onto the surface of, a specimen. An electron beam has a much shorter wavelength than does light, and can reveal structures as small as 2 nm.

molecular shape    →   oblik molekule

Molecular shape is the three dimensional arrangement of atoms in space around a central atom. The molecular formula of a substance does not give an indication of its shape. For example, CO₂ is a linear molecule, but SO₂ is angular.

The three-dimensional shapes of many small molecules can be predicted by applying the valence shell electron pair repulsion theory (VSEPR). When atoms combine to form molecules, pairs of valence electrons arrange themselves as far from each other as possible. Another way to characterize molecular shape is in terms of hybrid orbitals.

monosaccharide    →   monosaharid

Monosaccharides are carbohydrates, with the general formula C_n(H₂O)_n, that cannot be decomposed to a simpler carbohydrates by hydrolysis.

Depending on whether the molecule contains an aldehyde group (-CHO) or a ketone group (-CO-) monosaccharide can be a polyhydroxy aldehyde (aldose) or a polyhydroxy ketone (ketose). These aldehyde and ketone groups confer reduction properties on monosaccharides. They are also classified according to the number of carbon atoms they contain: trioses have three carbon atoms, tetroses four, pentoses five, hexoses six, heptoses seven, etc. These two systems of classification are often combined. For example, a six-carbon polyhydroxy aldehyde such as D-glucose is an aldohexose, whereas a six-carbon polyhydroxy ketone such as D-fructose is a ketohexose.

The notations D and L are used to describe the configurations of carbohydrates. In Fischer projections of monosaccharides, the carbonyl group is always placed on top (in the case of aldoses) or as close to the top as possible (in the case of ketoses). If the OH group attached to the bottom-most asymmetric carbon (the carbon that is second from the bottom) is on the right, then the compound is a D-sugar. If the OH group is on the left, then the compound is an L-sugar. Almost all sugars found in nature are D-sugars.

Monosaccharides can exist as either straight-chain or ring-shaped molecules. During the conversion from straight-chain form to cyclic form, the carbon atom containing the carbonyl oxygen, called the anomeric carbon, becomes a chiral center with two possible configurations (anomers), α and β. When the stereochemistry of the first carbon matches the stereochemistry of the last stereogenic center the sugar is the α-anomer when they are opposite the sugar is the β-anomer.

nuclear magnetic resonance    →   nuklearna magnetska rezonancija

Nuclear magnetic resonance (NMR) is a type of radio-frequency spectroscopy based on the magnetic field generated by the spinning of electrically charged atomic nuclei. This nuclear magnetic field is caused to interact with a very large (1 T - 5 T) magnetic field of the instrument magnet. NMR techniques have been applied to studies of electron densities and chemical bonding and have become a fundamental research tool for structure determinations in organic chemistry.