In patent chemistry, an alkyl substituent is an alkane missing one hydrogen.  The term alkyl is intentionally unspecific to include many possible substitutions in chemical patents. An acyclic alkyl has the general formula CnH2n+1. A cycloalkyl is derived from a cycloalkane by removal of a hydrogen atom from a ring and has the general formula CnH2n−1. Typically an alkyl is a part of a larger molecule. In structural formula, the symbol R is used to designate a generic (unspecified) alkyl group. The smallest alkyl group is methyl, with the formula CH3—. 
Alkyls in everyday life
The word root alkyl is encountered in several contexts. Alkylation is an important operation in refineries, for example in the production of high-octane gasoline. Alkylating antineoplastic agents refer to a class of compounds that are used to treat cancer. In such case, the term alkyl is used loosely. For example, nitrogen mustards are well-known alkylating agents, but they are more complex than a mere hydrocarbon. In chemistry, alkyl refers to a group, a substituent, that is attached to other molecular fragments. For example, alkyl lithium reagents have the empirical formula Li(alkyl), where alkyl = methyl, ethyl, etc. A dialkyl ether is an ether with two alkyl groups, e.g., diethyl ether (O(C2H5)2).
Alkyls in medicinal chemistry
In medicinal chemistry, the incorporation of alkyl chains into some chemical compounds increases their lipophilicity. This strategy has been used to increase the antimicrobial activity of flavanones and chalcones.
Alkyl cations, anions, and radicals
Usually alkyl groups are attached to other atoms or groups of atoms. Free alkyls occur as neutral compounds, as anions, or as cations. The neutral alkyls are called free radicals. The cations are called carbocations. The anions are called carbanions. Such species are usually encountered only as transient intermediates, but some are quite stable and can be "put into a bottle." Typically alkyl cations are generated using super acids, alkyl anions are observed in the presence of strong bases, and alkyl radicals are generated by a photochemical reaction. Alkyls are commonly observed in mass spectrometry of organic compounds.
Alkyls form homologous series. The simplest series have the general formula CnH2n+1. Alkyls include methyl, CH3· (named after methane), ethyl (C2H5·), propyl (C3H7·), butyl (C4H9·), pentyl (C5H11·), and so on. Alkyl groups that contain one ring have the formula CnH2n-1, e.g. cyclopropyl and cyclohexyl. The naming convention is taken from IUPAC nomenclature:
|Number of carbons||1||2||3||4||5||6||7||8||9||10||11||12|
These names are used to name branched chained structures, for example 3-methylpentane:
The structure of 3-methylpentane is viewed as consisting of two parts. First, five atoms comprise the longest straight chain of carbon centers. The parent five-carbon compound is named pentane (highlighted blue). The methyl "substituent" or "group" is highlighted red. According the usual rules of nomenclature, alkyl groups are included in the name of the molecule before the root, as in methylpentane. This name is, however, ambiguous, as the methyl branch could be on various carbon atoms. Thus, the name is 3-methylpentane to avoid ambiguity: The 3- is because the methyl is attached to the third of the 5-carbon atoms.
If there is more than one of the same alkyl group attached to a chain, then the prefixes are used on the alkyl groups to indicate multiples (i.e., di, tri, tetra, etc.)
This compound is known as 2,3,3-trimethylpentane. Here, there are three identical alkyl groups attached to carbon atoms 2, 3, and 3. These numbers are included in the name to avoid ambiguity on the position of the groups, and 'tri' indicates that there are three identical methyl groups. If one of the methyl attached to the third carbon atom were an ethyl group, then the name would become 3-ethyl-2,3-dimethylpentane. Note that, when there are different alkyl groups, they are listed in alphabetical order.
In addition, each position on an alkyl chain can be described according to how many other carbon atoms are attached to it. The terms primary, secondary, tertiary, and quaternary refer to a carbon attached to one, two, three, or four other carbons respectively.
|Look up alkyl in Wiktionary, the free dictionary.|
- IUPAC, Compendium of Chemical Terminology, 2nd ed. (the "Gold Book") (1997). Online corrected version: (2006–) "alkyl groups".
- IUPAC, Compendium of Chemical Terminology, 2nd ed. (the "Gold Book") (1997). Online corrected version: (2006–) "cycloalkyl groups".
- Virtual Textbook of Organic Chemistry Naming Organic Compounds
- Mallavadhani UV, Sahoo L, Kumar KP, Murty US (2013). "Synthesis and antimicrobial screening of some novel chalcones and flavanones substituted with higher alkyl chains". Medicinal Chemistry Research. doi:10.1007/s00044-013-0876-x.