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Organic chemistry and its animations

Organic chemistry is the branch of chemistry concerned with compounds of carbon. Carbon's ability to form four stable bonds and to link with itself in chains, rings and branched networks gives rise to an enormous variety of molecules, from simple hydrocarbons to the complex substances found in living organisms. The field underlies pharmaceuticals, plastics, fuels, dyes and much of biochemistry, which makes it a core subject in chemical education.

Organic molecules are usually classified by their functional groups — the reactive arrangements of atoms that determine how a compound behaves. Alkanes, alkenes and alkynes differ in the kinds of carbon–carbon bonds they contain, while families such as alcohols, ethers, aldehydes, ketones, carboxylic acids and amines are defined by distinctive groups. Aromatic compounds, built around the benzene ring, form another important class. Much of the subject involves reaction mechanisms: the step-by-step way bonds break and form as one molecule is converted into another.

Because the shape of a molecule strongly affects its chemistry, three-dimensional structure matters a great deal in this field, and flat printed formulas can be hard to interpret. Animations and interactive molecular viewers address this by letting a structure be rotated and examined from any angle, and by depicting reaction mechanisms as a sequence of moving electrons and shifting bonds. This makes the spatial and dynamic aspects of organic chemistry far easier to grasp than from static diagrams alone.

Frequently asked questions

What makes a compound “organic”?
Organic compounds are based on carbon, which forms stable bonds with itself and other elements to create chains, rings and branched structures of great variety.
What is a functional group?
It is a specific arrangement of atoms within a molecule, such as an alcohol or carboxylic acid group, that gives the compound its characteristic chemical behaviour.
Why are three-dimensional models useful in organic chemistry?
A molecule's shape influences how it reacts, so rotatable models convey spatial detail that flat structural formulas cannot easily show.




Chemistry java applets and animations:    
Acids and Bases Chemistry: overview Gas Laws Organic chemistry
Atoms, crystals & molecules Electrochemistry General chemistry  

Organic chemistry: java applets and animations 
alpha,beta-Unsaturated Carbonyls Carbonyls
Aldehydes and Ketones Aldehydes and Ketones
Aldehydes and Ketones These pages are devoted to the chemistry of the carbonyl group, the reactions of aldehydes and ketones
Alkane Physical Properties
Alkanes
Amines Amines
Combustion of Hydrocarbons
Conformation energy profile for ethane Conformation energy profile for ethane. See how the energy of an ethane molecule varies as the groups rotate around the C-C bond
Cycloaddition reactions
Cycloalkanes
d-Block complexes Ligand field or MO theory in d-block metal coordination complexes
Elimination reactions 1,2 elimination in 2-bromobutane, 2,3 elimination in 2-bromobutane
Enolates
Hookes Law simulation Hookes Law simulation. See how changing the bond strength or the masses attached to a bond influences the frequency of the vibration
Hybridization
Hydration of Alkenes
Mass Spectrometry
Molecular Orbitals
Molecular vibrations Vibrations in molecules
Nomenclature of Alkanes This tutorial covers the basics of alkane nomenclature
Photon absorption for IR spectroscopy Simulation of photon absorption for IR spectroscopy. See what happens when a photon is absorbed to create a vibrational excited state
Representing Compounds
Resonance Structures Resonance is a concept that is frequently used in Organic Chemistry to explain chemical reactivity. This animated tutorial provides the basics of drawing resonance structures
Sigma and Pi bonds
Stereochemistry
Submit a molecule or reaction for calculation
Visualisation of hybrid orbitals from C atomic orbitals Visualisation of hybrid orbitals from C atomic orbitals . See the relationship of atomic orbitals in sp3, sp2 and sp hybrid sets
VSEPR This tutorial discusses the concept of hybridization and explains how hybridized orbitals are the building blocks of organic chemistry. Using hybridization, VSEPR, and bonding theory, the tutorial shows how the shapes of molecules can easily be predicted

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