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László Poppe and
Mihály Nógrádi
Editors
Contributing Authors
László Poppe, József Nagy, Gábor Hornyánszky and
Zoltán Boros
An Introduction
Editors All books published by Wiley-VCH are
carefully produced. Nevertheless, authors,
Dr. László Poppe
editors, and publisher do not warrant the
Budapest Univ. of Technology &
information contained in these books,
Economics
including this book, to be free of errors.
Dept. of Organic Chemistry &
Readers are advised to keep in mind that
Technology
statements, data, illustrations, procedural
Szt. Gellért tér 4
details or other items may inadvertently
1111 Budapest
be inaccurate.
Hungary
Library of Congress Card No.: applied for
Dr. Mihály Nógrádi
Budapest Univ. of Technology &
British Library Cataloguing-in-Publication
Economics
Data
Dept. of Organic Chemistry &
A catalogue record for this book is avail-
Technology
able from the British Library.
Szt. Gellért tér 4
1111 Budapest
Hungary Bibliographic information published by the
Deutsche Nationalbibliothek
The Deutsche Nationalbibliothek
Contributing Authors
lists this publication in the Deutsche
Dr. László Poppe Nationalbibliografie; detailed
Budapest Univ. of Technology & bibliographic data are available on the
Economics Internet at <http://dnb.d-nb.de>.
Dept. of Organic Chemistry &
Technology
© 2016 Wiley-VCH Verlag GmbH & Co.
Szt. Gellért tér 4
KGaA, Boschstr. 12, 69469 Weinheim,
1111 Budapest
Germany
Hungary
Contents
2 Concepts of Stereochemistry 17
2.1 Elements and Groups of Symmetry 17
2.2 Classification of the Basic Concepts of Stereochemistry 21
2.2.1 Concepts Related to a Single Object (Molecule) or Parts of
Thereof 23
2.2.2 Concepts Referring to the Relationship of Two Objects (Molecules)
(Isomerism, Isomeric Relationship) 25
2.2.3 Concepts Referring to the Relationship of Parts of an Object
(Molecule) or Modes of Approach to an Object (Topicity) 31
2.3 Stereodescriptors 37
2.3.1 The D/L System, Fischer’s Projection 39
2.3.2 The R/S System 41
2.3.3 Hindered Rotation around a Double Bond, E/Z Isomerism 43
2.3.4 Axial Chirality, Helicity, M/P Descriptors 44
2.3.5 Planar Chirality, Rp /Sp -Descriptors 46
2.4 Prostereogenic Elements, Prochirality 48
2.4.1 Prostereoisomerism and Prochirality 48
2.4.2 Distinction of Stereoheterotopic Groups, the pro-R/pro-S
Notation 50
2.4.3 Prochiral and meso Compounds, Center of Pseudoasymmetry 52
2.4.4 Distinguishing of Stereoheterotopic Faces, the Re/Si Notation 54
References 56
VI Contents
4 Absolute Configuration 75
4.1 Methods to Determine Absolute Configuration 78
4.2 Strategies to Determine Absolute Configuration by Chemical
Correlation 79
4.2.1 Transformations of the Ligands Attached to an Asymmetric Unit
without Influencing the Bonds between the Asymmetric Unit and
the Ligands 81
4.2.2 Degradation of Multiple Asymmetric Units of a More Complex
Molecule until Only One Remains Intact 81
4.2.3 Stereoconstructive Strategy That Adds Further Asymmetric Elements
to One of the Known Absolute Configuration without Influencing
the Bonds between Its Asymmetric Unit and Ligands 82
4.2.4 Symmetrization of One or More Asymmetric Units Leading to a
Common Compound with Less (but More Than One) Asymmetric
Elements 82
4.2.5 Transformations Involving Stereospecific Reactions of Known
Stereochemistry Influencing the Bonds between the Asymmetric
Unit and the Ligands 83
References 84
6 Tautomerism 105
6.1 Types of Tautomerism 106
6.1.1 Valence Tautomerism 106
6.1.2 Classic Tautomerism 107
6.2 Prototropy 108
6.2.1 Oxo–Enol Tautomerism 108
6.2.2 Imine–Enamine Tautomerism 110
6.2.3 Amide–Imido Acid and Related Tautomerisms 112
6.2.4 Tautomerism of Aliphatic Nitro Compounds 113
6.2.5 Tautomerism of Carbonic Acid Derivatives Containing Cumulated
Double Bonds 113
6.2.6 Ring–Chain Tautomerism 114
6.3 Methods for Studying Tautomerism 115
6.4 Nitrogen Inversion 115
References 116
Index 257
XI
www.wiley.com/go/poppe/stereochemistry
Introduction
Part I
Basic Concepts at the Molecular Level
1
Structure and Properties
1.1
The Covalent Bond and the Octet Rule
The covalent nature of the chemical bond, assuming a shared pair of electrons, was
first proposed by G. N. Lewis in 1916 [1]. According to this concept, by sharing
two electrons, two hydrogen atoms can establish a stable bond by forming a closed
shell of electrons similar to that of the noble gas helium (Figure 1.1).
In the Lewis structures, electrons are symbolized by dots. The amount of
energy required to dissociate a hydrogen molecule to two hydrogen atoms is
called the bond dissociation (or bond) energy. In the case of H2 , this is quite high:
435 kJ mol−1 .
1) Under structure, chemists often understand a single state of a single molecule; therefore, at this
level, structure is a microscopic concept (to be discussed in more detail later).
2) Properties of a material are generally defined not on the basis of a given state of a single molecular
structure but on an assembly of a large number of molecules, on a timescale relatively long com-
pared to the timescale of molecular events, and therefore these properties are generally macroscopic
concepts.
H• •H H:H
2 H H H Hydrogen molecule HH
2 F F F Fluorine molecule FF
H
H
4 H + C H C H Methane molecule HC H
H
H
2 O + C O C O Carbon dioxide O C O
molecule
While with hydrogen molecule the number of electrons present in the valence
forming shell is limited to two, in the Lewis model, molecules composed from ele-
ments of the second row (Li, Be, B, C, N. O, F, and Ne) in the valence shells contain
eight (shared and unshared) electrons. Most organic compounds follow the octet
rule: on formation of their compounds, electrons are taken up, and elements are
shared or removed in a way that they should assume a stable structure involv-
ing eight valence electrons. When in compounds of carbon, nitrogen, oxygen, and
fluorine, the octet rule is valid, their electron configuration is analogous to that of
the noble gas neon. Lewis representation of some simple molecules is shown in
Figure 1.2.
Such structures showing the distribution of electrons (Lewis structures) are use-
ful aids for understanding covalent bond formation, but it is simpler to use the
s.c. Kekulé formulas.3) The latter are derived from Lewis formulas by replac-
ing a shared pair of electrons with a line connecting the corresponding atomic
symbols. Nonbonding electrons are shown by dots. Examples for structural for-
mulas drawn according to this principle are shown in Table 1.1. As a further
3) Based on the work of A. M. Butlerov, A. Couper, and F. A. Kekulé but at variance with their original
formulas, bonds between elements are shown by lines (Kekulé formulas).
1.1 The Covalent Bond and the Octet Rule 5
Water H2O HO H O
H H
H H
Methane CH4 HCH H C H
H H
H H
Methanol CH4O HCOH H C O H
H H
HH H H
Methylamine CH5N HCN H C N H
H H
H H H H
Ethene C2H4 C C C C
H H H H
H H
Formaldehyde CH2O C O C O
H H
Acetylene C2H2 HC CH H C C H
simplification of Kekulé formulas, nonbonding electrons are not shown since these
can be readily calculated following the octet rule.
As illustrated in Table 1.1 by ethene, formaldehyde, acetylene, and hydrogen
cyanide, atoms may share more than one pair of electrons forming in this way
multiple bonds. Compounds of boron, such as BH3 or BF3 , are exceptional in
a way that the valence shell of boron is not filled up with electrons as would be
required by the octet rule. Accordingly, these compounds have a high affinity to
electrons and are very reactive.
Valence is the number of those valence electrons, which must be taken up or
shed that the valence shell should attain the octet state (Table 1.2). In their covalent
compounds, the number of bonds adjoined to an atom is equal to the valence of
the given atom. Valences listed in Table 1.2 are typical of atoms common in organic
compounds.
6 1 Structure and Properties
Atom H C N O F Cl Br I
Valence 1 4 3 2 1 1 1 1
1.2
Representation of Chemical Structures
H2
H2
H2 C
H2C CH2 C
H2 C H2C CH2
C H2C CH2 H2C CH2 H2C CH2 H2C CH2
C
H2C CH2 H2C CH2 H2C CH2 H2 H2C CH2
OH
OH
OH
Butane 1-Butene 1-Butyne 1-Butanol 2-Butanol tert-Butanol
Cl
O O
NH2 O Cl
OH
2-Butanone Allylamine Diethyl ether 6-Chloromethyl-2,3-dimethyl- Chloroacetic
nonane acid
OH O H
N N
N O O N
Acetone oxime N,N-Dimethyl- Vinyl acetate Acetonitrile N-Ethylisopropylamine
formamide
H H H
Methanol CH3OH H C O H OH H
H OH
H
H C H
C C _
Pyridine C5H5N
C C
H N H N
Escitalopram _ _ _ N
Figure 1.5 Various modes of representation for methanol, pyridine, and the antidepressant
escitalopram.
When drawing linear formulas, for simplicity, symbols of carbon atoms, the
pairs of electrons, and hydrogen atoms attached to carbons are omitted. Accord-
ingly, all end points, breaking points, and points of branching represent a carbon
atom. Multiple bonds are shown by an appropriate number of parallel lines. Heavy
atoms other than carbon are shown by their atomic symbols together with the
hydrogen atoms attached.
Additional ways of representation are shown in Figure 1.5 by the example of
methanol, pyridine, and the antidepressant escitalopram. Representations include
the following:
Figure 1.5 well demonstrates that for smaller open-chain organic compounds
(e.g., methanol), it is the condensed or Kekulé formula that is the most appro-
priate for the demonstration of the two-dimensional features of the structure. In
case of smaller cyclic compounds (e.g., pyridine), the linear formulas are most
often used. To depict more complex structures (e.g., escitalopram), condensed
4) The details of the use of stereo formulas are exactly defined by IUPAC recommendations [2]. Easily
perceptible stereo formulas have only become generally used in the second half of the twentieth
century. Earlier, various other representations were used.
8 1 Structure and Properties
1.3
Description of Chemical Structure
5) Computer programs suitable to visualize chemical structures offer further possibilities (e.g., wire
models, ball and stick models, covering surfaces according to various properties and combinations
thereof ).
6) A molecule containing n atoms can have a maximum of 3n − 6 internal degrees of freedom and can
be described by 3n − 6 Cartesian coordinates. Use of Cartesian coordinates also defines its absolute
position, and therefore their use is uncomfortable.
7) A molecule containing n atoms can have a maximum of 3n − 6 internal degrees of freedom and
can be described by 3n − 6 internal coordinates. Internal coordinates reflect to local bonds and
symmetries; they can be composed by linear combinations of Cartesian coordinates.
8) Bond angles are often denoted by the symbol Θ. In polymer chemistry, it is usual to denote bond
angles as 𝜏, while the symbol Θ is for torsion angles.
9) Bond angles are sometimes called valence angles.
1.3 Description of Chemical Structure 9
D
r3
α2 α3
B ω 2 D B ω r2
r1 r2 α r1
B B r1
r r3
A B A α C A r1 α1
r2 C A α1 r2 C A α1 C
α2
r
II α1 + α2 + α2 = 180° ω = 180° ω = 0° D
3
I
III IVa IVs
D D
r3 r3
B ω B ω
α2 α3 α2 α3 r1 α2 α2
D r1 D
B B r3 r3
A α1 r2 C A α1 r2 C
A r1 α1
r2 C A r1 α1
r2 C
α1+α2+α2 < 180° α1+α2+α2 < 180° ω = 120° ω = −120°
IIIR IIIS IV+g IV–g
D D
C B A B B A
B C
A A D D
Figure 1.6 Characterization of molecules consisting of two, three, and four atoms with inter-
nal coordinates.
C–C C==C C≡C C–H C–O C==O C–N C–S C–F C–Cl C–Br C–I
pm 154 133 120 109 143 122 147 182 135 176 192 212
Å 1.54 1.33 1.20 1.09 1.43 1.22 1.47 1.82 1.35 1.76 1.92 2.12
S O O C O H C N
H H H H
α = 92.1° α = 103.9° α = 180° α = 180°
Hydrogen sulfide Water Carbon dioxide Hydrogen cyanide
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