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ADVISORY BOARD
ADVANCES IN
PHYSICAL ORGANIC
CHEMISTRY
Edited by
IAN H. WILLIAMS
Department of Chemistry,
University of Bath,
Bath, United Kingdom
NICHOLAS H. WILLIAMS
Department of Chemistry,
University of Sheffield,
Sheffield, United Kingdom
No part of this publication may be reproduced or transmitted in any form or by any means,
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Licensing Agency, can be found at our website: www.elsevier.com/permissions.
This book and the individual contributions contained in it are protected under copyright by
the Publisher (other than as may be noted herein).
Notices
Knowledge and best practice in this field are constantly changing. As new research and
experience broaden our understanding, changes in research methods, professional practices,
or medical treatment may become necessary.
Practitioners and researchers must always rely on their own experience and knowledge in
evaluating and using any information, methods, compounds, or experiments described
herein. In using such information or methods they should be mindful of their own safety and
the safety of others, including parties for whom they have a professional responsibility.
To the fullest extent of the law, neither the Publisher nor the authors, contributors, or editors,
assume any liability for any injury and/or damage to persons or property as a matter of
products liability, negligence or otherwise, or from any use or operation of any methods,
products, instructions, or ideas contained in the material herein.
ISBN: 978-0-12-800256-8
ISSN: 0065-3160
Annette D. Allen
Department of Chemistry, University of Toronto, Toronto, ON, Canada
Weifang Hao
Department of Chemistry and Biochemistry, Utah State University, Logan, UT, USA
Zhao Li
Department of Chemistry and Biochemistry, Utah State University, Logan, UT, USA
David J. Nelson
West CHEM/Department of Pure & Applied Chemistry, University of Strathclyde,
Glasgow, UK
Vernon D. Parker
Department of Chemistry and Biochemistry, Utah State University, Logan, UT, USA
Jonathan M. Percy
West CHEM/Department of Pure & Applied Chemistry, University of Strathclyde,
Glasgow, UK
Michael A. Robb
Chemistry Department, Imperial College, London, UK
Thomas T. Tidwell
Department of Chemistry, University of Toronto, Toronto, ON, Canada
vii j
PREFACE
, ix j
x Preface
IAN H. WILLIAMS
NICHOLAS H. WILLIAMS
CHAPTER ONE
Is the Single-Transition-State
Model Appropriate for the
Fundamental Reactions of
Organic Chemistry?
Experimental Methods and Data
Treatment, Pertinent Reactions,
and Complementary
Computational Studies
Vernon D. Parker1, Zhao Li, Weifang Hao
Department of Chemistry and Biochemistry, Utah State University, Logan, UT, USA
1
Corresponding author: E-mail: vernon.parker@usu.edu
Contents
1. Introduction 2
2. Kinetic Methods to Differentiate between Single-Step and Complex Mechanisms 4
2.1 The Basis for the Differentiation of Simple and Complex Mechanisms 4
2.2 Experimental Methods and Data Processing 7
2.3 The Use of Isosbestic Points to Differentiate between Single-Step 22
and Complex Reaction Mechanisms
3. SN2 Reactions in the Gas Phase and in Solution 28
3.1 SN2 Reactions in the Gas Phase 29
3.2 SN2 Reactions in Solution 34
4. Proton Transfer Reactions of Simple and Aryl Nitroalkanes in Solution 40
and in the Gas Phase
4.1 Proton Transfer Reactions in Water 43
4.2 Computations of the Proton Transfer Reactions of Nitroalkanes 47
5. Hydride Transfer Reactions of NADH/NADþ Model and Related Systems 49
5.1 NADH/NADþ Models 49
6. Computation Studies of Electrophilic Aromatic Substitution 62
6.1 Nitration with Nitronium Ions 62
6.2 Electrophilic Bromination of Benzene in the Gas Phase and in Carbon 68
Tetrachloride Solvent
7. Conclusions 73
Acknowledgments 75
References 75
Abstract
The experimental recording of spectrophotometric data suitable for detailed kinetic
analysis and reaction mechanism determination is covered early in the chapter with
examples of experiments and subsequent data treatment on a variety of different
chemical systems. Several new methods to distinguish between single-step and com-
plex reaction mechanisms are described in detail. The fundamental organic reactions
covered in more detail were limited to recent work on four general reaction types.
These include (1) proton transfer reactions of nitroalkanes and related compounds,
(2) SN2 reactions of CH3-X where X is the leaving group, (3) electrophilic aromatic sub-
stitution, and (4) hydride transfer reactions of NADH/NADþ model systems. In all cases
possible, discussion of the experimental studies was complemented by computa-
tional studies on the same reaction systems. The experimental kinetic studies all
involved short-lived intermediates and could only distinguish the complex mecha-
nisms involved from the mechanism with a single transition state. Computational
studies confirmed the complex nature of the mechanisms and provided structures
for the likely intermediates in the experimental reactions. The energies of the nonco-
valently bonded intermediates were highly dependent on the computational
method and therefore could not confirm the apparent Gibbs free energies of the
transition states.
1. INTRODUCTION
In 1997 Professor George S. Hammond published a short article,
Physical Organic Chemistry after 50 years: It has changed, but is it still there?1
In this article, Hammond summarized the remarkable developments in
the subdiscipline since it began with the work of L.P. Hammett.2 No
mention was made of the development of pseudo-first-order kinetic
methods that was the most important kinetic technique used by the vast
majority of physical organic chemists. Aside from the development of
very rapid kinetic techniques, essentially no improvements were made in
the methods for which so many rate constants were measured for linear
free energy relationships. This is evident from the classic book first pub-
lished in 1961, Kinetics and Mechanism, by J.W. Moore and R.G. Pearson
3rd edition published in 1981.3 This deficiency continued for the
remainder of the twentieth century. The digital revolution occurred dur-
ing the time period of the development of physical organic chemistry. The
latter had a great influence on the work of the physical chemists studying
rapid kinetics but did not filter down to the physical organic chemists
measuring rate constants of slower reactions. The objective of this chapter
is to fill this gap by introducing work on the fundamental reactions of
Single-Transition-State Model: Methods and Studies 3
k1 kf kp
A + B Product A + B I Product
kb
[P]/mM
[A]0 = 1.0 mM -1
kb = kp = 1 s
0.2 0.2 [A]0 = 1.0 mM
steady state
0.0 0.0
non-steady state
-0.2 -0.2
0.0 0.2 0.4 0.6 0.0 0.2 0.4 0.6
([A]0 - [A]) / mM ([A]0 - [A]) / mM
Figure 1.1 Theoretical [P] versus ([A]o [A]) profiles for the reactions following (left)
simple one-step and (right) two-step reversible consecutive mechanisms, calculated
under pseudo-first-order conditions, namely [B]o >> [A]o.
Single-Transition-State Model: Methods and Studies 5
Table 1.1 Time ratios t0.5/t0.05 for the pseudo-first-order reversible consecutive
mechanism with kp held constant at 1/s1 over a range of 106 in the rate
constant ratio (kp/kb) and a range of 105 in kf[B]o
kp/kb
kf[B]o 1000 100 10 1 0.1 0.01 0.001
[P] are as previously defined and (l1 þ l2) is equal to (kf þ kb þ kp), l1l2 is
equal to kfkp, and (kf l1) (kf l2) ¼ kfkb.
n
½R ¼ ½Ro ðl2 l1 Þ1 ðkb þ kp l1 Þexpð l1 tÞ
o (1.1)
ðkb þ kp l2 Þexpð l2 tÞ
n o
½I ¼ ½Ro kf ðl2 l1 Þ1 expð l1 tÞ expð l2 tÞ (1.2)
n h io
½P ¼ ½Ro 1 þ kf kp ðl1 l2 Þ1 expð l1 tÞ=l1 expð l2 tÞ=l2
(1.3)
Another advantage of conditions where only reactant or product absorbs
at the wavelength monitored is that all three rate constants in Scheme 1.1
can be evaluated by fitting experimental E.R.–time profiles to the set of
rate constants most consistent with the experimental data.6a
Single-Transition-State Model: Methods and Studies 7
Scheme 1.2 The SN2 reaction of phenoxide ion with methyl iodide.
Table 1.2 Changes in the slopes and the intercepts with the extent of reaction
during conventional pseudo-first-order analysis of the reaction of phenoxide ion
with methyl iodide in acetonitrile at 298 K
kapp/s1 Intercept/s1 Number of HL
steeply from an initial value of 0.07 to the plateau value of 0.013 s1 in about
2.5 s. This transformation in the plot clearly shows the initial stages of the
complex mechanism proceeding toward the steady state.
The application of method (3) (the 24-point sequential analysis) on the
same reaction is shown in Table 1.3. The value of kapp begins at 0.0444 s1
and the decreases to 0.0157 s1 in segment 6 before holding steady at the
plateau value for the remaining of the analysis. The SD over the 20 measure-
ments are relatively high (equal to about 23% of kapp) for segment 1 and then
decrease to 3.8% at the plateau. The cause of this phenomenon is that the
0.02
0.015
0.01
0 5 10 15 20 25 0 5 10 15 20 25
time/s time/s
Figure 1.2 Instantaneous rate constant (kIRC)-time plot (left) and a plot of the kapp-
segment data from Table 1.2 for the reaction between phenoxide ion and methyl
iodide in acetonitrile at 298 K (1.0 HL ¼ 48.6 s).
10 Vernon D. Parker et al.
Table 1.3 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of methyl iodide with phenoxide ion
in acetonitrile at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
number of data points that kapp values are derived from in segment 1 is only
11 and the number data points in the analysis steadily increases to 1999 in
going to segment 24.
The data in Table 1.3 are plotted on the right in Figure 1.2. In
comparing the plots in Figure 1.2 we see that they are very nearly superim-
posable. This in no way suggests that the two plots are redundant, but rather
provides a confirmation of results obtained from two very different methods.
Example 2. Proton Transfer Reactions of the Simple Nitroalkanes. The well-
known phenomenon referred to as the Nitroalkane anomaly was named by
Kresge27 to describe the inverse relationship between equilibrium and ki-
netic acidities of nitromethane, nitroethane, and 2-nitropropane in aqueous
solution. Kresge, and all others who have studied these reactions since
treated the data as arising from a simple single-step process. We have
recently19 reinvestigated the reactions and observed significant deviations
from pseudo-first-order behavior. Here, we take 2-nitropropane (2-NP)
as an example and show how detailed pseudo-first-order kinetics distinguish
between single-step and multistep mechanisms for the reactions of the sim-
ple nitroalkanes with hydroxide ion in water.
The HL dependence of kapp for the proton transfer reaction between
2-NP and hydroxide ion in water (Scheme 1.3) obtained by the application
of the pseudo-first-order linear least squares procedure is illustrated by the
data in Table 1.4. Once again, the change in kapp as a function of number
of HL analyzed is modest (about 10% of kapp) but the trend of decreasing
Single-Transition-State Model: Methods and Studies 11
Scheme 1.3 The proton transfer reaction of 2-nitropropane (2-NP) with hydroxide ion
in water.
Table 1.4 Changes in the slopes and the intercepts with the extent of reaction
during conventional pseudo-first-order analysis of the reaction of 2-nitropropane
(0.2 mM) with hydroxide ion (100 mM) in water at 298 K
kapp/s1 Intercept/s1 Number of HL
Table 1.5 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of 2-nitropropane (0.2 mM) with
hydroxide ion (100 mM) in water at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
(a) (b)
0.0375 [PNM] = 0.0518 mM
[2 -NP] = 0.2 mM in water at 298 k 0.6
[NaOH] = 4.0 mM
[NaOH] = 0.10 M in H2 O at 293k
0.0300 240 nm 0.5 294 nm
kIRC /s-1 -1
kIRC /s
0.0225 0.4
0.0150 0.3
0 5 10 15 20 25 0.00 0.05 0.10 0.15 0.20 0.25
time/s time/s
(c) (d)
0.0375 [2 -NP] = 0.2 mM in water at 298 k [PNM] = 0.0518 mM
0.6
[NaOH] = 4.0 mM
[NaOH] = 0.10 M in H2 O at 293k
0.0300 0.5
294 nm
240 nm
kapp /s-1 kapp /s-1
0.0225 0.4
0.0150 0.3
0 5 10 15 20 25 0.0 0.2 0.4 0.6 0.8 1.0
time/s time/s
Figure 1.3 Instantaneous rate constant (kIRC)-time plots (upper row, a and b) and plots
(bottom row, c and d) of the kapp-segment data from Tables 1.4 and 1.6 for the reactions
of (left column, a and c) 2-nitropropane (0.2 mM) with hydroxide ion (100 mM)
(1.0 HL ¼ 40.6 s) and of (right column, b and d) phenylnitromethane (0.052 mM) with
hydroxide ion (4.0 mM) in water at 293 K (1.0 HL ¼ 1.593 s).
Single-Transition-State Model: Methods and Studies 13
Scheme 1.4 The proton transfer reaction of phenylnitromethane (PNM) with hydroxide
ion in water.
Table 1.6 Changes in the slopes and the intercepts with the extent of reaction
during conventional pseudo-first-order analysis of the reaction of
phenylnitromethane (0.0518 mM) with hydroxide ion (4.0 mM) in water at 293 K
kapp/s1 Intercept/s1 Number of HL
Table 1.7 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of phenylnitromethane (0.0518 mM)
with hydroxide ion (4.0 mM) in water at 293 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
H H H H
CONH2 CONH2
AN
+
+
CIO4
N N N N
CIO4
H 2C Ph CH3 H 2C Ph CH3
BNAH MA+CIO4-
BNA CIO4 MAH
Table 1.8 Changes in the slopes and the intercepts with the
extent of reaction during conventional pseudo-first-order
analysis of the reaction of BNAH (7.2 mM) with MAþ (0.3 mM)
in acetonitrile at 298 K
kapp/s1 Intercept/s1 Number of HL
Table 1.9 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of BNAH (7.2 mM) with MAþ (0.3 mM)
in acetonitrile at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
2.0
[BNAH]= 7.2mMin AN at 298K
+ -
[MA CIO4 ] = 0.3mM, 430nm
1.5
kIR C /s-1
1.0
0.5
0.0 0.2 0.4 0.6 0.8
time/s
Figure 1.4 Instantaneous rate constant (kIRC)-time plot for the reaction of BNAH
(7.2 mM) with MAþ (0.3 mM) in acetonitrile at 298 K.
H H H H
_ AN
+ + BF +
+
N N _
BF
CH3 Tr + BF4- CH
TrH
MAH MA+CIO4-
(1 HL) and decreasing smoothly to 0.190 s1 (4 HL). The corresponding in-
tercepts increase from 0.0064 (0.5 HL) to 0.0973 (4 HL), a factor of about 15
indicating a great deal of curvature in the correlation.
The 24-point sequential analysis (Table 1.11) for product evolution
(MAþ) in this case, once again a sharply decreasing kapp from 0.699 at
segment 1 to a more slowly decreasing 0.266 s1 at segment 8 and finally
at segment 24, kapp equal to 0.222 s1.
The kIRC–time profile (Figure 1.5, left) allows for a more detailed illus-
tration of the pattern indicated above. It should be pointed out, once again,
that this general pattern is obviously inconsistent with a single-step mecha-
nism and that there is an intermediate that absorbs at the wavelength of the
experiment.
Table 1.11 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of MAH (0.2 mM) with Trþ (50 mM) in
acetonitrile at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
0.0015
[MAH] = 40 mM
0.8 [BQCN+] = 0.5 mM
[MAH] = 0.4 mM in AN at 298K 0.0012 in AN at 298 K
0.6 [Tr+ ] = 0.05 M, 430nm kIRC /s-1 294 nm
kIRC /s-1
0.0009
0.4
0.2 0.0006
0.0 0.5 1.0 1.5 2.0 2.5 0 100 200 300 400 500
time/s time/s
Figure 1.5 Instantaneous rate constant (kIRC)-time plots for the reactions of (left) MAH
(0.4 mM) with Trþ (50 mM) (1.0 HL ¼ 2.87 s), and of (right) MAH (40 mM) with BQCNþ
(0.5 mM) in acetonitrile at 298 K (1.0 HL ¼ 602 s).
H H H H
_ H
BF4 CN CN
+
+
AN +
+
N N _
N BF4 N
CH3 H 2C Ph CH3 H2C Ph
+
MAH BQCN MA +CIO4- BQCNH
Table 1.13 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of MAH (40 mM) with BQCNþ
(0.5 mM) in acetonitrile half-saturated with air at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
Scheme 1.8 The SN2 reaction of bromoacetonitrile with phenoxide ion in acetonitrile.
Table 1.15 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of BrAN (5.0 mM) with PO (0.50 mM)
in acetonitrile at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
pattern observed in earlier tables with kapp equal to 0.0350 s1 (0.5 HL) and
decreasing smoothly to 0.0289 s1 (4 HL).
In segment 1 of the 24-point sequential analysis (Table 1.15), kapp for
reactant (PO) decay was equal to 0.1038 s1 with an SD of 0.0188.
Both quantities decreased sharply over the next few segments to
0.0382 s1 and 0.0005, respectively, in segment 7. The trend continued
but with much smaller changes for the remainder of the reaction period.
Single-Transition-State Model: Methods and Studies 21
0.0012
0.100
[BrAN] = 6 mM in AN at 298 K
0.0008
pretreated with 1 mM PO
0.075 [PO] = 1mM, 310nm kIRC /s-1
pretreated with 0.5 mM BrAN
kIRC /s-1
0.0004 [Pyr] = 1.25 M in AN at 298 K
0.050 [BBr] = 40 mM, 345nm
0.0000
0.025 400
0 2 4 6 8 10 12 0 100 200 300 500
time/s time/s
Figure 1.6 Instantaneous rate constant (kIRC)–time plots for the reactions of (left) BrAN
(5.0 mM) with PO (0.50 mM) (1.0 HL ¼ 19.0 s), and of (right) pyridine (1.25 M) with
benzyl bromide (40 mM) in acetonitrile at 298 K (1.0 HL ¼ 697 s).
The kIRC–time profile for the reaction of phenoxide ion with bromoa-
cetonitrile (Figure 1.6, left) shows an initial steep rise to a maximum at short
times before decreasing toward a very slightly decreasing or nearly constant
value. The formation of intermediate dominants in the initial sharp rise in
kIRC is a possible explanation of this phenomenon.
Example 8. The Reaction of Pyridine with Benzyl Bromide in Aceto-
nitrile (Scheme 1.9).
The pseudo-first-order analysis data in Table 1.16 for the reaction of pyr-
idine with benzyl bromide do not fit the general pattern in correlation quan-
tities expected for product evolution in a complex mechanism, and this is
due to the fact that reactant decay was monitored. In this case, it would
appear from the kapp values that a steady state may be approached late in
the reaction.
The data from the 24-point sequential analysis in Table 1.17 is complex
with kapp ¼ 0.000,174 s1 in segment 1, going to a minimum
(0.000,117 s1) and then increasing steadily to 0.001,066 s1 at segment
24. We have not yet studied this interesting process in detail. It is of interest
to note that the SD values are greater than the corresponding kapp values sug-
gesting that they should be ignored until a more thorough study has been
carried out.
The kIRC–time profile for the SN2 reaction between benzyl bromide and
pyridine (Figure 1.6, right), after the initial small value at point 1, a
Scheme 1.9 The SN2 reaction of pyridine with benzyl bromide in acetonitrile.
22 Vernon D. Parker et al.
Table 1.17 Apparent rate constants and standard deviations (SD) obtained by the
24-point sequential analysis of the reaction of pyridine (1.25 M) with benzyl
bromide (40.0 mM) in acetonitrile at 298 K
Time/s kapp/s1 SD/s1 Segment Time/s kapp/s1 SD/s1 Segment
Language: French
LE MYSTÈRE
DU TIGRE
ROMAN
ROMANS
LA FUMERIE DE SINGAPOUR