Haydar A.
Mohammad-Salim
*a,
Huda Ahmed
Basheer
a,
Hassan H.
Abdallah
b,
Abdellah
Zeroual
c and
Lazgin Abdi
Jamil
a
aDepartment of Chemistry, University of Zakho, Duhok, Iraq. E-mail: hayder.salim@uoz.edu.krd
bDepartment of Chemistry, Salahaddin University, Erbil, Iraq
cMolecular Modeling and Spectroscopy Research Team, Faculty of Science, Chouaïb Doukkali University, P. O. Box 20, El Jadida 24000, Morocco
First published on 24th November 2020
The [3+2] cycloaddition (32CA) reactions of N-benzylcyclohexylnitrone 1 with methyl-3-butenoate 2 have been studied within molecular electron density theory (MEDT) at the B3LYP/6-311++G(d,p) level of theory. These zwitterionic type 32CA reactions occur through a one-step mechanism. The 32CA reactions undergo two pairs of stereo- and regioisomeric reaction paths to form four different products, 3, 4, 5 and 6. The reaction paths are irreversible due to the exothermic character of −18.5 and −12.4 kcal mol−1. The 32CA reaction leading to the formation of cycloadduct 3 presents the lowest activation enthalpy compared to the other path due to a slight increase in polar character evident from the global electron density transfer (GEDT) at the transition states and along the reaction path. The bonding evolution theory (BET) study suggests that these 32CA reactions occur through the coupling of pseudoradical centers and the formation of new C–C and C–O covalent bonds has not been started in the transition states.
The advent of computational chemistry in recent years has gradually attracted theoretical chemists to analyze the reactivity and selectivity of organic molecules. A new theoretical outlook for organic reactions was proposed by Domingo in 2016, named molecular electron density theory14 (MEDT), after interpretation of a vast array of organic reactions, the majority of them Diels–Alder (DA) and 32CA reactions.15,16 This theory analyzes changes in electron density to study the molecular reactivity and has been successfully applied for several 32CA reactions in the last four years.15
Numerous DFT studies carried out within MEDT devoted to the TAC reactivity participating in 32CAs have allowed establishing a useful classification of 32CAs relying on the electronic structure and the TAC behavior into pseudodiradical (pdr-type), pseudo(momo)radical (pmr-type), carbenoid (cb-type) and zwitterionic (zw-type).17–19 The feasibility of zw-type reactions relies on the polar character of the 32CAs, i.e. the electrophilic character of the nitrones and the nucleophilic character of the alkenes, or vice versa. Nitrones, in general, are good nucleophiles that able to react with electron-deficient alkenes.20
Herein, we present an MEDT study at the B3LYP/6-311++G(d,p) level of theory for the synthesis of isoxazolidines from the 32CA reaction of N-benzylcyclohexylnitrone 1 with methyl-3-butenoate 2 (Scheme 1). In this work, we studied the analysis of the reactivity indices derived from conceptual DFT21,22 (CDFT) for the reagents, the energy profiles of the 32CA of 1 and 2 and electron localization function23 (ELF) topological analysis for understanding the bonding changes.
1 | 2 | |
---|---|---|
V(O1) | 2.93 | — |
V′(O1) | 3.05 | — |
V(N2,O1) | 1.28 | — |
V′(N2,C3) | 4.15 | — |
V(C4,C5) | — | 1.78 |
V′(C4,C5) | — | 1.77 |
Fig. 1 B3LYP/6-311++G(d,p) calculated ELF localisation domains represented at an isosurface value of ELF = 0.80 of N-benzylcyclohexylnitrone 1 and methyl-3-butenoate 2. |
The ELF topology of N-benzylcyclohexylnitrone 1 shows the presence of two V(O1) and V′(O1) monosynaptic basins having a total population of 5.98 e, associated with the non-bonding electrons of the O1 oxygen lone pairs, and a V(N2,O1) disynaptic basin and a V(N2,C3) disynaptic basin with an integrated population of 1.28 e and 4.15 e, respectively. The V(N2,C3) disynaptic basin can be associated with the under populated N2–C3 double bond, while the V(N2,O1) disynaptic basin is associated with the under populated N2–O1 single bond. Thus, N-benzylcyclohexylnitrone 1 can be classified as a zwitterionic TAC due to the absence of carbenoid or pseudoradical centers.25–28 This suggests participation of nitrone 1 in zw-type 32CA reactions associated with high activation energies.28
μ | η | ω | N | |
---|---|---|---|---|
1 | −2.90 | 5.47 | 0.77 | 3.85 |
2 | −3.12 | 9.10 | 0.54 | 1.82 |
The electronic chemical potential μ of N-benzylcyclohexylnitrone 1, μ = −2.90 eV, is higher than that of methyl-3-butenoate 2, which is −3.12 eV. The electrophilicity ω and nucleophilicity N indices of N-benzylcyclohexylnitrone 1 are 0.77 and 3.85 eV respectively, being classified as a marginal electrophile and a strong nucleophile within the corresponding scales.29,30 The electrophilicity ω and nucleophilicity N indices of methyl-3-butenoate 2 are 0.77 and 1.82 eV, respectively, being classified as a marginal electrophile and a marginal nucleophile. In spite of the strong nucleophilic character of nitrone 1, the marginal electrophilic character of 2 indicates that this zw-type 32CA reaction will have non-polar character.
Gas phase | Toluene | |||||||
---|---|---|---|---|---|---|---|---|
ΔE | ΔH | ΔG | GEDT | ΔE | ΔH | ΔG | GEDT | |
TS1-ex | 18.1 | 17.6 | 31.2 | 0.008 | 19.4 | 18.9 | 32.3 | 0.007 |
3 | −17.4 | −18.5 | −3.2 | — | −15.6 | −16.6 | −1.13 | — |
TS1-en | 19.1 | 18.6 | 32.5 | 0.007 | 20.5 | 20.0 | 34.1 | 0.007 |
4 | −17.2 | −18.2 | −2.8 | — | −15.5 | −16.5 | −1.03 | — |
TS2-ex | 21.8 | 21.3 | 34.8 | 0.014 | 23.2 | 22.7 | 84.7 | 0.014 |
5 | −11.2 | −12.4 | 3.91 | — | −9.5 | −10.7 | 5.7 | — |
TS2-en | 22.9 | 22.4 | 36.2 | 0.012 | 24.3 | 23.7 | 37.6 | 0.012 |
6 | −13.4 | −14.3 | 1.18 | — | −11.6 | −12.5 | 2.87 | — |
The activation enthalpies associated with these 32CA reactions are 17.6, 18.6, 21.3 and 22.4 kcal mol−1 for TS1-ex, TS1-en, TS2-ex and TS2-en, respectively, in the gas phase, and 18.9, 20.0, 22.7 and 23.7 kcal mol−1 for TS1-ex, TS1-en, TS2-ex and TS2-en, respectively, in toluene at 298 K; the reactions are exothermic between 12.4 and 18.5 kcal mol−1 in the gas phase, and between 10.7 and 16.6 kcal mol−1 in toluene.
Analysis of the relative enthalpies allows establishing some appealing conclusions: (i) The 32CA reaction between N-benzylcyclohexyl nitrone 1 and methyl-3-butenoate 2 leading the formation of cycloadduct 3 presents the lower activation enthalpy of 17.6 kcal mol−1 in the gas phase and 18.9 kcal mol−1 in toluene. (ii) The activation enthalpy for this 32CA reaction that corresponds to the formation of cycloadduct 3 is lowered by about 1.3 kcal mol−1 in both the gas phase and in toluene. (iii) The reaction enthalpy for cycloadduct 3 obtained from the 32CA reaction between N-benzylcyclohexyl nitrone 1 and methyl-3-butenoate 2 is higher than that of 5 by about 6.1 kcal mol−1 in the gas phase and 5.9 kcal mol−1 in toluene; these values indicate that this reaction is under kinetic and thermodynamic control. (iv) The exothermic character of the 32CA reaction that leads to the formation of cycloadduct 3 makes the reaction irreversible. (v) The inclusion of solvent effects of toluene slightly increases the activation enthalpies and the reaction enthalpies, leading therefore to better solvation of the reagent than the TS.
The B3LYP/6-311++G(d,p) optimized geometries of the TSs are given in Fig. 3. In the gas phase, the distances between the C3 and C4, and O1 and C5 interacting centers at the transition states are: 2.17 and 2.11 Å at TS1-ex, 2.17 and 2.11 Å at TS1-en, 2.23 and 2.01 Å at TS2-ex and 2.17 and 2.11 Å at TS2-en, respectively, with Δd (|dC3–C4 − dO1–C5|) values of 0.06 and 0.22 Å. The calculated Δd values in toluene are 0.04 and 0.2 Å.
These geometrical parameters indicate that while TS1-ex is associated with low asynchronicity processes, TS2-ex with the highest activation energy shows the highest asynchronicity. The analysis of the geometrical parameters indicates that at both transition states, the formation of the C–C and C–O single bond has not yet begun.31
The polar nature of the 32CA reactions was analyzed by GEDT calculations.31 The GEDT values in the gas phase at the TSs are 0.008 e at TS1-ex, 0.007 e at TS1-en, 0.014 e at TS2-ex and 0.012 e at TS2-en (see Table 3). Similar values of GEDT were obtained for both TSs in toluene as a solvent. These values, which are less than 0.05 e, indicate that this 32CA reaction has non-polar character, in clear agreement with the CDFT analysis.
Phases | I | II | III | IV | V | VI | VIII | |
---|---|---|---|---|---|---|---|---|
Structures | S0 | S1 | S2 = TS1-ex | S3 | S4 | S5 | S6 | P1 |
d(C5–O1) | 3.12 | 2.27 | 2.11 | 2.08 | 1.96 | 1.68 | 1.58 | 1.45 |
d(C3–C4) | 3.41 | 2.38 | 2.17 | 2.11 | 1.97 | 1.69 | 1.63 | 1.55 |
GEDT | 0.047 | 0.051 | 0.008 | 0.011 | 0.082 | 0.221 | 0.243 | 0.257 |
V(O1) | 3.05 | 2.97 | 2.98 | 2.97 | 2.92 | 2.76 | 2.66 | 2.63 |
V′(O1) | 3.93 | 2.92 | 2.93 | 2.92 | 2.89 | 2.68 | 2.62 | 2.54 |
V(N2,C3) | 4.15 | 3.26 | 2.61 | 2.41 | 2.03 | 1.95 | 1.90 | 1.89 |
V(N2,O1) | 1.28 | 1.19 | 1.14 | 1.11 | 1.06 | 0.95 | 0.93 | 0.87 |
V(N2) | 0.99 | 1.33 | 1.56 | 1.83 | 2.15 | 2.23 | 2.33 | |
V(C3) | 0.51 | 1.10 | 1.41 | |||||
V(C4,C5) | 1.78 | 1.67 | 1.62 | 2.75 | 2.42 | 2.06 | 1.97 | 1.94 |
V′(C4,C5) | 1.77 | 1.64 | 1.58 | |||||
V(C4) | 0.42 | 1.08 | 1.39 | |||||
V(C5) | 0.21 | 0.76 | ||||||
V(C5,O1) | 0.96 | 1.16 | ||||||
V(C3,C4) | 1.75 | 1.82 | 1.88 |
Phase II starts at S1, d(O1–C5) = 2.27 Å and d(C3–C4) = 2.38 Å. S1 shows the formation of a V(N2) monosynaptic basin with an integrated population of 0.99 e. The electron density for formation of the V(N2) monosynaptic basin in S1 is derived from the V(N2,C3) disynaptic basin, which shows depopulation from 4.15 e in S0 to 3.26 e in S1. Interestingly, S1 shows GEDT values of 0.05. This suggests increased polar character and hence a lower energy requirement to reach S1.
Phase III starts at S2, d(O1–C5) = 2.21 Å and d(C3–C4) = 2.17 Å, and this shows the formation of V(C3) and V(C4) monosynaptic basins with an integrated population of 0.51 e and 0.42 e, respectively. S2 shows a GEDT value of 0.008. Phase IV starts at S3, d(O1–C5) = 2.08 Å and d(C3–C4) = 2.11 Å. S3 shows the formation of a V(C4) monosynaptic basin with an integrated population of 1.08, which is formed by deriving electron density from the V(N2,C3) disynaptic basin, and S3 shows a GEDT value of 0.011. As shown in Fig. 4, TS1-ex belongs to Phase IV. This suggests that the relative energies of the TSs correspond to the energy cost for the formation of pseudoradical centers at the reacting nuclei. This 32CA reaction involves an early TS with no new covalent bond formation.
Phase V starts at S4, d(O1–C5) = 1.96 Å and d(C3–C4) = 1.97 Å, with the formation of a pseudoradical center at C5 with an integrated population of 0.21 e. Phase VI starts at the structure S5 for the, dO1–C5 = 1.68 Å and dC3–C4 = 1.69 Å. At structure S5, while the V(C4) monosynaptic basin present at S3 is missing in S4. At the beginning of this phase the first more relevant change along the IRCs takes place. A new V(C3,C4) disynaptic basin with an integrated population of 1.75 e is created.
Finally, the last Phase VII starts at S6, d(O1–C5) = 1.58 Å and d(C3–C4) = 1.63 Å, and the second more relevant change along the IRC takes place. In these structures, a new V(O1,C5) disynaptic basin is created with an integrated population of 0.96 e, while the V(C5) monosynaptic basin disappeared. This relevant topological change indicates that the formation of the second O1–C5 single bond has started, through the C− to –O coupling of the electron density of the C5 pseudoradical carbon and part of the non-bonding electron density of the O1 oxygen lone pairs. The molecular electron density, along this phase, is relaxed to reach the structure of product 3 in the 32CA reaction, in which the population of the V(C3,C4) and V(O1,C5) disynaptic basins reaches 1.88 e and 1.16 e, respectively.
TS1-ex | TS1-en | TS2-ex | TS2-en | |
---|---|---|---|---|
V(O1) | 2.98 | 2.96 | 2.93 | 2.92 |
V′(O1) | 2.93 | 2.91 | 2.92 | 2.91 |
V(N2) | 1.33 | 1.42 | 1.49 | 1.48 |
V(N2,O1) | 1.14 | 1.12 | 1.11 | 1.11 |
V(N2,C3) | 2.61 | 2.52 | 2.50 | 2.48 |
V(C4,C5) | 2.92 | 2.92 | 2.82 | 2.83 |
V(C3) | 0.51 | 0.54 | 0.58 | 0.56 |
V(C4) | 0.42 | 0.42 | 0.56 | 0.56 |
The ELF topological analysis of TS1-ex, TS1-en, TS2-ex and TS2-en also displays the presence of a single V(N2) monosynaptic basin, with an integrated population of 1.33–1.49 e, which comes from the depopulation of the N2–C3 bonding region. The N2–C3 bonding region undergoes a depopulation of the electron density from 4.15 e in 1 to 2.61 e, 2.52 e, 2.50 e and 2.48 e in TS1-ex, TS1-en, TS2-ex and TS2-en, respectively.
In the methyl-3-butenoate framework, a disynaptic basin, V(C4,C5), associated with the C4–C5 bonding region with a total integrated population of 2.92 e (TS1-ex), 2.92 e (TS1-en), 2.82 e (TS2-ex) and 2.83 e (TS2-en) is observed. The ELF of the transition states shows the presence of a single V(C4) monosynaptic basin with an integrated population of 0.42 e, 0.42 e, 0.56 and 0.56 e for TS1-ex, TS1-en, TS2-ex and TS2-en, respectively, and a single V(C3) monosynaptic basin is also observed for TS1-ex, TS1-en, TS2-ex and TS2-en with an integrated population of 0.51 e, 0.54 e, 0.58 e and 0.56 e, respectively. The V(O1,C5) and V(C3,C4) disynaptic basins at TS1-ex, TS1-en, TS2-ex and TS2-en have not appeared, which indicates that the formation of O1–C5 and C3–C4 single bonds has not yet started.
The computations consist of geometry optimizations followed by frequency calculations to ensure that a transition state has only one imaginary frequency and that a local minimum has no imaginary frequencies (all positive frequencies). Intrinsic reaction coordinate (IRC) computations were carried out to verify that the minimum energy reaction pathway via a transition state connects with the corresponding reactants and products.40
All energies and thermodynamic parameters reported in this paper were obtained from frequency calculations at the same level of theory. The enthalpies, Gibbs free energies and entropies in the gas phase were deduced with standard statistical thermodynamics at 298.15 K and 1 atm. The CYLview software was used as a graphical interface.41
The global electrophilicity index (ω) is calculated using the equation ω = (μ2/2η).42 The chemical hardness (η) and the electronic chemical potential (μ) quantities may be approached in terms of the one electron energies of the Highest Occupied Molecular Orbital (HOMO) and Lowest Unoccupied Molecular Orbital (LUMO), εHOMO and εLUMO, as η ≈ εLUMO − εHOMO and μ ≈ (εHOMO + εLOMO)/2, respectively.43,44 The relative nucleophilicity N index45 is obtained based on the energies of the HOMO within the scheme of Kohn–Sham.46 This quantity can be defined as N = EHOMO(Nu) − EHOMO(TCE). As a reference, we chose TCE (tetracyanoethylene) due to its lowest HOMO energy.45
The global electron density transfer31 (GEDT) was calculated using the sum of the natural atomic charges (q) obtained by a natural population analysis (NPA). Topological analysis of the electron localization function (ELF) and the representation of its basin isosurface were performed by using the Multiwfn package. The topological evaluation of non-covalent interactions (NCI) was also performed using the Multiwfn software by analyzing the gas phase SCF density.
Toluene was used to examine the solvent effects using the conductor like polarizable continuum model47 (PCM) in the framework of the self-consistent reaction field48 (SCRF). The thermodynamic parameters were calculated in the gas phase and toluene with standard statistical thermodynamics at 298.15 K and 1 atm.
Analysis of the geometrical parameters indicates that the TSs are associated with a low asynchronicity process at TS1-ex. A different behaviour at TS2-ex is observed which shows a high asynchronicity with the shortest distance between the O1 and C5 centers in the gas phase and toluene. Analysis of the GEDT at the TSs indicates that the 32CA reaction of N-benzylcyclohexylnitrone 1 with methyl-3-butenoate 2 is non-polar.
The BET analysis of the 32CA reactions of N-benzylcyclohexylnitrone 1 with methyl-3-butenoate 2 leading to the formation of 3 shows the formation of an N2 pseudoradical center at the beginning of the reaction with a GEDT of 0.051 e. Consequently, the increase in the GEDT accounts for the lowering of the energy cost along the reaction paths.
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