Thursday, September 24, 2020

Nomenclature roundup

Here are the main types of chemical nomenclature in a nutshell. Well, the post turned out to be a bit longer than I expected. So let’s say “chemical nomenclature in a coconutshell”.

Compositional nomenclature

Compositional nomenclature can be used for both compounds and elementary substances.

Stoichiometric names reflect the empirical formulae or the molecular formulae. In case of compounds, these names are binary, i.e. any such name consists of two parts, (more) electropositive and (more) electronegative:

empirical formula Au gold
empirical formula NaCl sodium chloride
empirical formula SiO2 silicon dioxide
molecular formula O3trioxygen
molecular formula CO2 carbon dioxide

Extended binary-type names still consist of two parts, positive and negative, at least one of which is a name of a heteropolyatomic ion. Typically these ions are given “acceptable non-systematic names”.

KOH potassium hydroxide
NH4NO3 ammonium nitrate

Additive nomenclature

Coordination-type additive names reflect the formulae of coordination entities. Any such name is a single word, where the ligands are listed first, followed by the name of the central atom:

[UF6] hexafluoridouranium
[Fe(NO)(OH2)5]2+ pentaaquanitrosyliron(2+)
[Ag(SCN)4]3− tetrakis(thiocyanato)argentate(3−)

This method could be extended to dinuclear and polynuclear coordination entities with the help of geometrical and structural descriptors and bridging ligands.

[OClO] μ-chlorido-dioxygen(•)
[W3O9] cyclo-tri-μ-oxido-tris(dioxidotungsten)
[Cu44-S)] μ4-sulfido-quadro-tetracopper(4CuCu)

Organic-type additive names are constructed in a number of ways:

  • Hydrogen addition to unsaturated carbon—carbon bonds is expressed with a ‘hydro’ prefix (‘dihydro’, ‘tetrahydro’, etc.) to the parent name.
1,2,3,4-tetrahydronaphthalene
  • Oxygen and halogen addition to unsaturated carbon—carbon bonds is expressed by binary names consisting of parent names followed by “oxide”, “chloride”, etc.
naphthalene 1,2-oxide
benzene hexachloride
  • Chalcogen addition to heteroatoms is expressed by binary names that consist of parent names followed by “oxide”, “sulfide”, etc.
dibenzo[b,d]thiophene 5-oxide

Substitutive nomenclature

Substitutive names are based on names of parent structures, parent hydrides or functional parents, modified with names of substituents that replace implicit hydrogen atoms.

A simple substitutive name is based on a single parent structure.

CHBrCl2 bromodichloromethane
4-amino-3-(4-chlorophenyl)butanoic acid
5,7-dichloro-2-methylquinolin-8-ol

A multiplicative substitutive name is based on two or more identical parent structures linked by di- or polyvalent substituents:

2,2′,2″-nitrilotriacetic acid
1,2′-methylenedinaphthalene

Subtractive nomenclature

Subtractive names are constructed in a number of ways:

  • With prefix ‘de’, followed by the name of a group or atom other than hydrogen, denotes replacement of that group or atom with hydrogen. Thus ‘demethyl’ means –CH3 → –H, ‘deamino’ –NH2 → –H, ‘decarboxy’ –COOH → –H, etc. As an exception, ‘deoxy’ indicates replacement of an –OH group by –H, i.e. a formal loss of an oxygen atom.
demethylmirtazapine
deoxyadenosine
  • With ‘dehydro’ denoting the loss of a hydrogen atom; employed in pairs to indicate the unsaturation of a carbon—carbon bond, i.e. ‘didehydro’, ‘tetradehydro’, etc.
1,2-didehydrobenzene
  • With ‘anhydro’, which refers to the formal loss of H2O from the parent molecule, often with new bond formation:
1,6-anhydro-N-acetyl-β-D-muramic acid

Skeletal modification nomenclature

Skeletal modification names are based on names of parent structures, parent hydrides or functional parents.

Skeletal replacement names are derived from the names of parent structures by replacing a skeletal atom. In organic structures, that means the replacement of a carbon atom (plus a number of implicit hydrogens) with a heteroatom (plus its implicit hydrogens). In heteroboranes, that means the replacement of boron atom(s) of a parent boron hydride with another element. This method is also known as ‘a’ nomenclature.

3,6,9,12-tetraoxatetradecane-1,14-diol
1,3,5-trioxa-2,4,6-triboracyclohexane
closo-1,12-dicarbadodecaborane(12)

‘Homo’-type names contain the prefix ‘homo’ indicating the insertion of one carbon atom along with the implicit hydrogens into a parent structure.

homocysteine

‘Nor’-type subtractive names contain the prefix ‘nor’ indicating the removal of one unsubstituted skeletal atom along with the implicit hydrogens from a parent structure.

7-norcholest-4-en-3-one

‘Cyclo’-type skeletal modification names contain the prefix ‘cyclo’ indicating an additional ring in a cyclic parent structure; ‘cyclo’ has to be preceded by the locants of the skeletal atoms that form a new bond.

9β,19-cyclolanostane

‘Seco’-type skeletal modification names contain the prefix ‘seco’ indicating ring cleavage in a cyclic parent structure; ‘seco’ has to be preceded by the locants of the skeletal atoms where the bond scission occurs.

13-hydroxy-3-oxo-13,17-secoandrost-4-en-17-oic acid

Functional replacement nomenclature

Functional replacement nomenclature uses the common names of oxoacids to create the names for their –OH or =O substitution derivatives.

trithiocarbonic acid
carbonotrithioic acid
sulfurothious O-acid
sulfurothious S-acid

Conjunctive nomenclature

Conjunctive names are constructed by joining together the names of its cyclic and acyclic parent structures:

benzeneacetic acid
1H-imidazole-4-ethanamine

Radicofunctional nomenclature

Radicofunctional or functional class names are binary names consisting of the name of substituent followed by a functional class name.

C2H5OH ethyl alcohol
H2C=CHCl vinyl chloride
C2H5C(O)C2H5 diethyl ketone
methyl β-D-glucopyranoside
benzoyl chloride
benzoic anhydride
benzyl benzoate
sodium benzoate

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