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''Article derived from the [http://en.wikipedia.org/wiki/Organic_chemistry Wikipedia article on organic chemistry].''

'''Organic chemistry''' is a specific discipline within the subject of [[chemistry]]. It is the [[science|scientific]] study of the structure, properties, composition, [[chemical reaction|reactions]], and preparation (by [[organic synthesis|synthesis]] or by other means) of chemical compounds of [[carbon]] and [[hydrogen]], which may contain any number of other elements, such as [[nitrogen]], [[oxygen]], [[halogens]], and, more rarely, [[phosphorus]] or [[sulfur]] <ref>Robert T. Morrison, Robert N. Boyd, and Robert K. Boyd, ''Organic Chemistry'', 6th edition (Benjamin Cummings, 1992, ISBN 0-13-643669-2) - this is "Morrison and Boyd", a classic textbook</ref> <ref>Richard F. and Sally J. Daley, ''Organic Chemistry'', www.ochem4free.com, Online organic chemistry textbook.</ref>.

The original definition of organic chemistry came from the misperception that these compounds were always related to [[life]] processes, but now it is known that life also depends heavily on [[inorganic chemistry]]; for example, many enzymes rely on transition metals such as iron and copper; and materials such as shells, teeth and bones are part organic, part inorganic in composition.  Inorganic chemistry deals, apart from elemental carbon, only with simple carbon compounds, with molecular structures which do not contain carbon to carbon connections (its oxides, acids, salts, carbides, and minerals).  This does not mean that single-carbon organic compounds do not exist (viz. [[methane]] and its simple derivatives).  Compounds that are related to life processes are dealt with in the branch of chemistry which is called [[biochemistry]].  

Because of their unique properties, multi-carbon compounds exhibit extremely large variety and the range of application of organic compounds is enormous. They form the basis of or are important constituents of many products ([[paint]]s, [[plastic]]s, [[food]], [[explosive]]s, [[drug]]s, [[petrochemical]]s, and many others) and of course (apart from a very few exceptions) they form the basis of all life processes.

The different shapes and chemical reactivities of organic molecules provide an astonishing variety of functions, like those of [[enzyme]] [[catalyst]]s in biochemical reactions of live systems. The autopropagating nature of these is what life is all about.

Because of the special properties of carbon, it is likely that life on other [[star]] systems will be found to be carbon-based, in spite of speculations about the possibility of substituting [[silicon]], which lies just below carbon in the [[periodic table]].

Trends in organic chemistry include [[chiral synthesis]], [[green chemistry]], [[microwave chemistry]], [[fullerene]]s and [[rotational spectroscopy|microwave spectroscopy]].

==Historic highlights==
[[Image:Friedrich woehler.jpg|right|thumb|200px|[[Friedrich Wöhler]]]]

Towards the beginning of the nineteenth century, chemists generally thought that compounds from living organisms were too complicated in structure and that these compounds, through a 'vital force' or [[vitalism]], were unique in that they could self-propagate. They named these compounds 'organic' and proceeded to ignore them.

Organic chemistry received a boost when it was realized that these compounds could be treated in ways similar to [[inorganic compound]]s and could be manufactured by means other than 'vital force'. Around 1816 [[Michel Chevreuil]] started a study of [[soap]]s made from various [[fat]]s and [[alkali]]. He separated the different [[acid]]s that, in combination with the alkali, produced the soap.  Since these were all individual compounds, he demonstrated that it was possible to make a chemical change in various fats (which traditionally come from  organic sources), producing new compounds, without 'vital force'.

The real event that has completely destroyed the myth of 'vitalism' occurred, however, when in [[1828]] [[Friedrich Wöhler]] first manufactured the organic chemical [[urea]] (carbamide), a constituent of the liquid waste matter urine from the inorganic [[cyanates|ammonium cyanate]] NH<sub>4</sub>OCN, in what is now called the [[Wöhler synthesis]].

A great next step was when in 1856 [[William Henry Perkin]], while trying to manufacture [[quinine]], again accidentally came to manufacture the organic dye now called [[Perkin's mauve]], which by generating a huge amount of money greatly increased interest in organic chemistry. Another step was the laboratory preparation of [[DDT]] by Othmer Zeidler in 1874, but the insecticide properties of this compound were not discovered till much later.

The history of organic chemistry continues with the discovery of [[petroleum]] and its separation into [[fraction]]s according to boiling ranges. The conversion of different compound types or individual compounds by various chemical processes created the petroleum chemistry leading to the birth of the petrochemical industry, which successfully manufactured artificial rubbers, the various organic adhesives, the property modifying petroleum additives, and plastics. 

The pharmaceutical industry began in the last decade of the 19th century when acetylsalicylic acid ([[aspirin]]) manufacture was started in Germany by [[Bayer]].

[[Biochemistry]], the chemistry of living organisms, their structure and interactions in vitro and inside living systems, has only started in the 20th century, opening up a brand new chapter of organic chemistry with enormous scope.

==Classification of organic substances==
===Description and nomenclature===
Classification is not possible without having a full description of the individual compounds. 
In contrast with [[inorganic chemistry]], in which describing a [[chemical compound]] could be achieved by simply enumerating the chemical symbols of the [[chemical element|elements]] present in the compound together with  the number of these elements in the molecule, in organic chemistry the relative arrangement of the atoms within a molecule has to be added for a full description.

One way of describing the molecule is by drawing its [[structural formula]]. Because of the complexity this method has changed, becoming simplified over the years. The latest version is the line formula, which achieves simplicity without introducing ambiguity, whilst representing carbon and hydrogen by implication. The disadvantage which arises from the fact that structural formulae cannot be described by words, and that they are not easily printable does not arise when the structure is described by the [[organic nomenclature]] .  

Because of the difficulty due to the very large number and variety of organic compounds, chemists realized early on that the establishment of an internationally accepted system of naming organic compounds was of paramount importance. The Geneva Nomenclature was born in 1892 as a result of a number of international meetings on the subject.

It was also realized that as the family of organic compounds grew, the system would have to be expanded and modified. This task was ultimately taken on by the International Union on Pure and Applied Chemistry, [[IUPAC]]. 

Recognizing the fact that in the branch of Biochemistry, the complexity of organic structures increases, the IUPAC organisation joined forces with [[IUBMB]], the [[International Union of Biochemistry and Molecular Biology]], to produce a list of joint recommendations on nomenclature.

Further on, as number and complexity grew, new recommendations were made within IUPAC for simplification. The first such recommendation was presented in 1951 when a cyclic benzene structure was named a [[cyclophane]]. Later recommendations extended the method to the simplification of other complex cyclic structures, including for instance heterocyclics as well, and named such structures ''[[phanes (organic chemistry)|phanes]]''.

For ordinary communication, to spare a tedious description, the official IUPAC naming recommendations are not always followed in practice except when it is necessary to give a concise definition to a compound, or when the IUPAC name is simpler (viz. ''ethanol'' against ''ethyl alcohol''). Otherwise the ''common'' or [[trivial name]] may be used, often derived from the source of the compound.

=== Classification === 
'''In summary''': organic substances are classified by their molecular structural arrangement and by what other atoms are present with the chief (carbon) constituent in their makeup, whilst in a structural formula, hydrogen is implicitly assumed to occupy all free valencies of an appropriate carbon atom, which remain after accounting for branching, other element(s) and/or multiple bonding.

==== Hydrocarbons  and Functional Groups ====
Classification normally starts with the [[hydrocarbons]]: compounds which contain only carbon and hydrogen. For sub-classes see below. Other elements, present themselves in atomic configurations called [[functional groups]] which have decisive influence on the chemical and physical characteristics of the compound; thus those containing the same atomic formations have similar characteristics, which may be [[miscibility]] with water, [[acidity]]/ [[alkalinity]], chemical [[reactivity]], [[oxidation]] resistance, or others. Some functional groups are also radicals, similar to those in inorganic chemistry, defined as ''polar'' atomic configurations which pass during chemical reactions from one chemical compound into another without change.

Some of the elements of the functional groups (O, S, N, [[halogens]]) may stand alone and the ''group'' name is not strictly appropriate, but because of their decisive effect on the way they modify the characteristics of the hydrocarbons in which they are present they are classed with the functional groups, and their specific effect on the properties lends excellent means for characterisation and classification.

Referring to the hydrocarbon types below, many, if not all of the [[functional groups]] which are typically present within [[aliphatic]] compounds are also represented within the [[aromatic]] and [[alicyclic]] group of compounds, unless they are dehydrated, which would lead to non-reacting co-optional groups.

Reference is made here again to the [[organic nomenclature]], which shows an extensive (if not comprehensive) number of classes of compounds according to the presence of various functional groups, based on the [[IUPAC]] recommendations, but also some based on [[trivial name]]s. Putting compounds in sub-classes becomes more difficult when more than one functional group is present.

Two overarching  chain type categories exist: Open Chain [[aliphatic]] compounds and Closed Chain [[cyclic compound]]s. Those in which both open chain and cyclic parts are present are normally classed with the latter.

==== Aliphatic compounds ====
The aliphatic hydrocarbons are subdivided into three groups, [[homologous series]] according to their state of [[Saturation (chemistry)|saturation]]: paraffins [[alkane]]s without any double or triple bonds, olefins [[alkene]]s with double bonds, which can be mono-olefins  with a single double bond, di-olefins, or di-enes with two, or poly-olefins with more. The third group with a triple bond is named after the name of the shortest member of the homologue series as the acetylenes [[alkyne]]s. The rest of the group is classed according to the functional groups present.

From another aspect aliphatics can be straight chain or branched chain compounds, and the degree of branching also affects characteristics, like  [[octane number]] or [[cetane number]] in petroleum chemistry.

==== Aromatic and alicyclic compounds ====
Cyclic compounds can, again, be saturated or unsaturated. Because of the bonding angle of carbon, the most stable configurations contain six carbon atoms, but while rings with five carbon atoms are also frequent, others are rarer. The cyclic hydrocarbons divide into [[alicyclic]]s and [[aromatic]]s (also called [[arene]]s). 

Of the [[alicyclic]] compounds the [[cycloalkane]]s do not contain multiple bonds, whilst the [[cycloalkene]]s and  the [[cycloalkyne]]s do. Typically this latter type only exists in the form of large rings, called macrocycles. The simplest member of the cycloalkane family is the three-membered [[cyclopropane]].

[[Aromatic]] hydrocarbons contain [[conjugation|conjugated]] double bonds. One of the simplest examples of these is [[benzene]], the structure of which was formulated by [[Kekulé]] who first proposed the [[delocalization]] or [[Resonance (chemistry)|resonance]] principle for explaining its structure.  For "conventional" cyclic compounds, [[aromaticity]] is conferred by the presence of 4n + 2 delocalized pi electrons, where n is an integer.  Particular instability (antiaromaticity) is conferred by the presence of 4n conjugated pi electrons.

The characteristics of the cyclic hydrocarbons are again altered if heteroatoms are present, which can exist as either substituents attached externally to the ring (exocyclic) or as a member of the ring itself (endocyclic). In the case of the latter, the ring is termed a [[heterocycle]].  [[Pyridine]] and [[furan]] are examples of aromatic heterocycles while [[piperidine]] and [[tetrahydrofuran]] are the corresponding alicyclic heterocycles. 

The heteroatom of heterocyclic molecules is generally oxygen, sulfur, or nitrogen, with the latter being particularly common in biochemical systems.

Rings can fuse with other rings on an edge to give polycyclic compounds. The [[purine]] nucleoside bases are notable polycyclic aromatic heterocycles.  Rings can also fuse on a "corner" such that one atom (almost always carbon) has two bonds going to one ring and two to another.  Such compounds are termed [[spiro compound|spiro]] and are important in a number of [[natural product]]s.

====Polymers====
One important property of carbon in organic chemistry is that it can form certain compounds, the individual molecules of which are capable of attaching themselves to one another, thereby forming  a chain or a network. The process is called [[polymerisation]] and the chains or networks [[polymers]], whilst the source compound is a [[monomer]]. Two main groups of polymers exist: those artificially manufactured are referred to as [[plastics|industrial polymers]] <ref>"industrial polymers, chemistry of." Encyclopædia Britannica. 2006 </ref>
or synthetic [[polymers]] and those naturally occurring as [[biopolymer]]s.  

Since the invention of the first artificial polymer, [[bakelite]], the family has quickly grown with the invention of others. Common synthetic organic polymers are [[polyethylene]] or polythene, [[polypropylene]], [[nylon]], [[teflon]] or PTFE, [[polystyrene]], [[polyester]]s,  [[polymethylmethacrylate]] (commonly known as perspex or plexiglas) [[polyvinylchloride]] or PVC, and [[polyisobutylene]]  important artificial or synthetic [[rubber]] also the polymerised [[butadiene]], a rubber component.

The examples are generic terms, and many varieties of each of these may exist, with their physical characteristics fine tuned for a specific use. Changing the conditions of polymerisation changes the chemical composition of the product by altering [[degree of polymerization|chain length]], or [[branching]], or the [[tacticity]]. With a single monomer as a start the product is a [[homopolymer]]. Further, secondary component(s) may be added to create a [[copolymer|heteropolymer]] (co-polymer) and the degree of clustering of the different components can also be controlled. Physical characteristics, such as hardness, [[density]], mechanical or [[tensile strength]], abrasion resistance, heat resistance, transparency, colour, etc. will depend on the final composition. 

The only other element that can produce polymers is silicon. The [[silicones]], however, show one major difference from carbon based polymers, inasmuch as  unlike the direct C-C bonds of those based on carbon in silicones the Si atoms are joined indirectly through oxygen links.

====Biomolecules====
[[Biomolecule|Biomolecular chemistry]] is a major category within organic chemistry.  Many complex multi-functional group molecules are important in living organisms. Some are long-chain [[biopolymers]]. The main classes are [[carbohydrate]]s, [[amino acid]]s and [[protein]]s, [[polysaccharide]]s, [[lipid]]s, and [[nucleic acid]]s.

====Others====
Organic compounds containing bonds of carbon to nitrogen, oxygen and the halogens are not normally grouped separately. Others are sometimes put into major groups within organic chemistry and discussed under titles such as [[organosulfur chemistry]], [[organometallic chemistry]], [[organophosphorus chemistry]] and [[organosilicon chemistry]].

==Characteristics of organic substances==
Organic compounds are generally [[covalent bond|covalently bonded]].  This allows for unique structures such as long carbon chains and rings. The reason carbon is excellent at forming unique structures and that there are so many carbon compounds is that carbon atoms form very stable covalent bonds with one another ([[catenation]]). In contrast to inorganic materials, organic compounds typically melt, boil, sublimate, or decompose below 300&nbsp;°C. Neutral organic compounds tend to be less [[soluble]] in [[water]] compared to many inorganic [[salts]], with the exception of certain compounds such as ionic organic compounds and low [[molecular weight]] [[alcohols]] and [[carboxylic acids]] where [[hydrogen bonding]] occurs.

Organic compounds tend rather to dissolve in organic [[solvent]]s which are either pure substances like [[diethyl ether|ether]] or [[ethanol|ethyl alcohol]], or mixtures, such as the paraffinic solvents such as the various [[petroleum ether]]s and [[white spirit]]s, or the range of pure or mixed aromatic solvents obtained from petroleum or tar [[fraction]]s by physical separation or by chemical conversion. Solubility in the different solvents depends upon the solvent type and on the [[functional groups]] if present. Solutions are studied by the science of [[Physical Chemistry]]. Like inorganic salts, organic compounds may also form [[crystal]]s. Unique property of carbon in [[organic compound]]s is that its valency does not always have to be taken up by atoms of other elements, and when it is not, a condition termed [[unsaturation]] results. In such cases we talk about carbon carbon [[double bonds]] or [[alkyne|triple bonds]]. Double bonds alternating with single in a chain are called [[Conjugated system|conjugated]] double bonds. An [[aromatic]] structure is a special case in which the conjugated chain is a closed ring.

==Molecular structure elucidation==
[[Organic compounds]] consist of carbon atoms, hydrogen atoms, and [[functional groups]]. The [[valence (chemistry)|valence]] of carbon is 4, and hydrogen is 1, functional groups are generally 1. From the number of carbon atoms and hydrogen atoms in a molecule the [[degree of unsaturation]] can be obtained. Many, but not all structures can be envisioned by the simple valence rule that there will be one bond for each valence number. The knowledge of the [[chemical formula]] for an organic compound is not sufficient information because many [[isomer]]s can exist. 
Organic compounds often exist as [[mixture]]s. Because many organic compounds have relatively low [[boiling point]]s and/or dissolve easily in organic [[solvent]]s there exist many methods for separating mixtures into pure constituents that are specific to organic chemistry such as [[distillation]], [[crystallization]] and [[chromatography]] techniques.
There exist several methods for deducing the structure an organic compound.  In general usage are (in alphabetical order):

* [[Crystallography]]: This is the most precise method for determining [[molecular geometry]]; however, it is very difficult to grow crystals of sufficient size and high quality to get a clear picture, so it remains a secondary form of analysis.
* [[Elemental Analysis]]: A destructive method used to determine the elemental composition of a molecule.
* [[Infrared spectroscopy]]: Chiefly used to determine the presence (or absence) of certain [[functional groups]].
* [[Mass spectrometry]]: Used to determine the [[molecular weight]] of a compound and from the fragmentation pattern its structure.
* [[Nuclear magnetic resonance|Nuclear magnetic resonance (NMR) spectrometry]] identifies different nuclei from their chemical environment.
* [[UV/VIS spectroscopy]]: Used to determine degree of conjugation in the system

Additional methods are provided by [[analytical chemistry]].

==Organic reactions==
[[Organic reaction]]s are [[chemical reaction]]s involving [[organic compound]]s. While pure [[hydrocarbon]]s undergo certain limited classes of reactions, many more reactions which organic compounds undergo are largely determined by [[functional group]]s. The general theory of these reactions involves careful analysis of such properties as the [[electron affinity]] of key atoms,[[bond strength]]s and [[steric hindrance]]. These issues can determine the relative stability of short-lived [[reactive intermediate]]s, which usually directly determine the path of the reaction. An example of a common reaction is a [[substitution reaction]] written as:
:Nu<sup>−</sup>  +  C-X  → C-Nu + X<sup>−</sup>

where X is some [[functional group]] and Nu is a [[nucleophile]]. 

There are many important aspects of a specific reaction. Whether it will occur spontaneously or not is determined by the [[Gibbs free energy]] change of the reaction. The heat that is either produced or needed by the reaction is found from the total [[Enthalpy]] change. Other concerns include whether [[side reaction]]s occur from the same reaction conditions. Any side reactions which occur typically produce undesired compounds which may be anywhere from very easy or very difficult to separate from the desired compound.

==See also==
*[[List of publications in chemistry#Organic chemistry|Important publications in organic chemistry]]
*[[List of organic reactions]]

==References==
<references/>

     
==External links==

*[http://ocw.mit.edu/OcwWeb/Chemistry/5-12Spring-2005/CourseHome/index.htm MIT OpenCourseWare: Organic Chemistry I]
*[[Journal of Organic Chemistry]] ([http://pubs.acs.org/journals/joceah/index.html Table of Contents])
*[[Organic Letters]] ([http://pubs.acs.org/journals/orlef7/index.html Table of Contents])
*[http://www.thieme-connect.com/ejournals/toc/synlett Synlett]
*[http://www.thieme-connect.com/ejournals/toc/synthesis Synthesis]
*[http://www.organic-chemistry.org Organic Chemistry Portal - Recent Abstracts and (Name)Reactions]
*[http://www.ochem4free.com Home of a full, online, peer-reviewed organic chemistry text.]
*[http://www.cem.msu.edu/~reusch/VirtualText/intro1.htm#info Virtual Textbook of Organic Chemistry]
*[http://www.organicworldwide.net Organic World Wide - A collection of Links]
*[http://library.thinkquest.org/3659/orgchem/functionalgroups.html (Organic Families and Their Functional Groups)]
*[http://www.ilearnchemistry.com Roger Frost's Chemistry Teaching Tools - Organic Chemistry]
*[http://www.chemhelper.com  Organic chemistry help]
*[http://www.jchem.info Free Organic Chemical Data and Name Reaction Mechanisms]
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[[Category:Organic chemistry|*]]