Posts Tagged ‘lowest energy’

Molecule orbitals as indicators of reactivity: bromoallene.

Thursday, September 1st, 2016

Bromoallene is a pretty simple molecule, with two non-equivalent double bonds. How might it react with an electrophile, say dimethyldioxirane (DMDO) to form an epoxide?[1] Here I explore the difference between two different and very simple approaches to predicting its reactivity. bromoallene

Both approaches rely on the properties of the reactant and use two types of molecule orbitals derived from its electronic wavefunction. The first of these is very well-known as the molecular orbital (MO), which has the property that it tends to delocalise over all the contributing atoms (the “molecule”). MOs are often used in this context; the highest energy occupied MO is thought of as being associated with the most nucleophilic (electron donating) regions of the molecule and so such a HOMO would be expected to predict the region of nucleophilic attack. The second is known as the natural bond orbital (NBO), which is evaluated in a manner that tends to localise it on bonds (the functional groups or reaction centres) and atom centres. What do these respective orbitals reveal for bromoallene? 

The MOs
HOMO, -0.3380 HOMO-1, -0.3692 au
Click for  3D

Click for 3D

Click for  3D

Click for 3D

The NBOs
HONBO, -0.3769 HONBO-2, -0.3898
Click for  3D

Click for 3D

Click for  3D

Click for 3D

The table above shows the energies (in Hartrees) of the four relevant orbitals. The less negative (less stable) the orbital, the more nucleophilic it is. The (heavily) delocalized HOMO is located on the C=C bond bond carrying the C-Br bond, Δ1,2 alkene, but it also has a large component on the Br. The more stable HOMO-1 is located on the C=C bond located away from the Br, the Δ2,3 alkene and also with a (different type of) component on the Br.

In contrast, the HONBO is located on the Δ2,3 alkene and it is the HONBO-2 that is on the Δ1,2 alkene. Both these orbitals have very little “leakage” onto other atoms, they are almost completely localised.

Well, now we have a problem since these two analyses lead to diametrically opposing predictions! So what does experiment say? A recent article[1] addresses this issue by isolating the initially formed epoxide from reaction with DMDO and characterising it using crystallography. But here comes the catch; such isolation only proved possible if the allene was also substituted with large sterically bulky groups such as t-butyl or adamantyl. And the isolated product was the Δ1,2 epoxide. So does that mean that the MO method was correct and the NBO method wrong? Well, not necessarily. Those large groups play an additional role via steric effects. To factor in such effects one has to look at the transition state model for the reaction rather than depending purely on the reactant properties. And the steric effects in this case appear to win out over the electronic ones.[1]

The Klopman[2]-Salem[3] equation (shown in very simplified, and original, form below for just the covalent term) casts some light on what is going on. This term is a double summation over occupied/unoccupied (donor-acceptor) orbital interactions, involving the coefficients of the orbitals (the overlap integrals in effect) in the numerator and the energy difference between the occupied/unoccupied orbital pair as denominator.

KS1

Performing such a double summation is rarely attempted; instead the equation is reduced to just one single term involving the donor of highest energy and the acceptor of lowest energy, ensuring the energy difference is a minimum and hence the term itself is (potentially) the largest in the summation. There is still the issue of the orbital coefficients, and here we get to the crux of the difference between the use of MOs and NBOs. You can see by inspection that the two π-MOs for bromoallene have different coefficients on the two atoms of interest, the two carbons of the double bond. One really has to evaluate the size of this term in the summation by using quantitative values for the respective coefficients and to very probably include the further terms in the summation for any other orbitals which also have significantly non-zero coefficients on these two atoms. But with the NBOs, the localisation procedure used to derive them has reduced the coefficients to just the carbon atoms and effectively no other atoms; all the other terms in the double summation in effect do drop out entirely. So with NBOs, the only number that matters is the energy difference between the occupied/empty orbitals (the denominator). But since the acceptor (the electrophile, DMDO in this case) is the same for both regiochemistries, things reduce even further to just comparing the donor energies for the two alternatives (Table above). The higher/less stable of these will have the greater contribution in the Klopman-Salem equation.

This little molecule teaches the important lesson that electronic and steric effects both play a role in directing reactions, and in this system they may well oppose each other. Simple interpretations based on reactant orbitals may give only a partial and even potentially misleading answer.

References

  1. D. Christopher Braddock, A. Mahtey, H.S. Rzepa, and A.J.P. White, "Stable bromoallene oxides", Chemical Communications, vol. 52, pp. 11219-11222, 2016. https://doi.org/10.1039/c6cc06395k
  2. G. Klopman, "Chemical reactivity and the concept of charge- and frontier-controlled reactions", Journal of the American Chemical Society, vol. 90, pp. 223-234, 1968. https://doi.org/10.1021/ja01004a002
  3. L. Salem, "Intermolecular orbital theory of the interaction between conjugated systems. I. General theory", Journal of the American Chemical Society, vol. 90, pp. 543-552, 1968. https://doi.org/10.1021/ja01005a001

A molecular balance for dispersion energy?

Sunday, February 7th, 2016

The geometry of cyclo-octatetraenes differs fundamentally from the lower homologue benzene in exhibiting slow (nuclear) valence bond isomerism rather than rapid (electronic) bond-equalising resonance. In 1992 Anderson and Kirsch[1] exploited this property to describe a simple molecular balance for estimating how two alkyl substituents on the ring might interact via the (currently very topical) mechanism of dispersion (induced-dipole-induced-dipole) attractions. These electron correlation effects are exceptionally difficult to model using formal quantum mechanics and are nowadays normally replaced by more empirical functions such as Grimme's D3BJ correction.[2] Here I explore aspects of how the small molecule below might be used to investigate the accuracy of such estimates of dispersion energies.

bu

The concentration of the two forms shown above can be readily estimated by NMR spectroscopy (the barrier is slow enough to allow peaks for both isomers to be integrated). This shows that the 1,6 form is present in greater concentrations than the 1,4 form, equivalent to a difference in free energy ΔΔG298 of 0.39 kcal/mol in favour of the former. Why is this? Because, it is claimed,  in the 1,6 isomer the two t-butyl groups are close enough to experience mutual dispersion attractions not experienced by the 1,4 form. This can be illustrated using the NCI display below for the two forms.

Click for 3D.  Addition NCI interactions ringed in red.

Click for 3D. 1,6-isomer: Additional NCI interactions ringed in red.

Click for  3D

Click for 3D, 1,4 isomer.

Method Equilibrium constant, 298K ΔΔE ΔΔH298 ΔΔS298 ΔΔG298 Source
Experiment 1.93 1.14 -2.5 0.387 [1]
B3LYP/Def2-TZVPP/CDCl3 (no dispersion) 1.906 0.05 0.00 +1.3 0.382 [3],[4]
B3LYP/Def2-TZVPP/CDCl3 (gd3bj dispersion) 8.36 0.75 0.66 +2.0 1.25 [5],[6]

This contains a contribution of RTLn 2 (= 0.410 kcal/mol = 1.04 in ΔS), where 2 is the symmetry number for a species with C2 rotational symmetry, to the 1,4-isomer only.

The interpretation of these results, as is often found, is non-trivial.

  1. The relative concentrations of species in equilibrium equates with their relative free energies, ΔG298 and not ΔE (the difference in total energy computed using either quantum or molecular mechanics).
  2. ΔG298  has a component derived from the entropy of the system, and this in turn has contributions from symmetry (numbers).  Only the 1,6-isomer has two-fold rotational symmetry for the lowest energy pose of the two t-butyl groups, and this contributes 0.41 kcal/mol to ΔG298. This aspect is not discussed in the original article.[1]
  3. The B3LYP/Def2-TZVPP DFT method predicts ΔΔE to be +0.05 kcal/mol without the inclusion of the D3BJ dispersion correction but +0.75 kcal/mol with. One might approximately equate the latter to the contributions ringed in red in the NCI distributions shown above. The enthalpies (where ΔΔE is corrected for zero point energies) are very similar.
  4. Conversion to ΔG298 involves use of the vibrational frequencies to obtain the entropy; here one encounters a difference between the two double bond isomers. The lowest energy vibration for C2-symmetric 1,4 is 23 cm-1, whereas that for the 1,6 is only 7 cm-1 (a value which also depends on round-off errors and accuracies in the calculation). These errors in the RRHO (rigid-rotor-harmonic-oscillator) approximations makes meaningful calculation of ΔS298 and hence ΔG298 problematic at this small energy difference level. In both cases, this approach suggests that the entropy of the 1,6 form is slightly larger than the 1,4 isomer, whereas the reverse is apparently true by experimental measurement. It might all boil down to those low-frequency vibrations!

So we may conclude that whereas the dispersion uncorrected method gets the right answer for the equilibrium constant for probably the wrong reasons, inclusion of a dispersion correction would get the right answer were it not for the error in the entropy. Agreement with experiment would be obtained if the calculated entropy difference were to be -0.9 kcal/mol K-1 instead of +2.0. Thus the 1,6 isomer has the two t-butyl groups weakly interacting (red circle above), which intuition tends to suggest would reduce the entropy (reduce the disorder) of the system and not increase it. 

At least in this relatively small molecule, we now have a handle for estimating these sorts of effects in terms of variables such as the basis set used, the energy Hamiltonian (e.g. type of functional etc) and of course the dispersion correction.

References

  1. J.E. Anderson, and P.A. Kirsch, "Structural equilibria determined by attractive steric interactions. 1,6-Dialkylcyclooctatetraenes and their bond-shift and ring inversion investigated by dynamic NMR spectroscopy and molecular mechanics calculations", Journal of the Chemical Society, Perkin Transactions 2, pp. 1951, 1992. https://doi.org/10.1039/p29920001951
  2. S. Grimme, S. Ehrlich, and L. Goerigk, "Effect of the damping function in dispersion corrected density functional theory", Journal of Computational Chemistry, vol. 32, pp. 1456-1465, 2011. https://doi.org/10.1002/jcc.21759
  3. H.S. Rzepa, "C 16 H 24", 2016. https://doi.org/10.14469/ch/191875
  4. H.S. Rzepa, "C 16 H 24", 2016. https://doi.org/10.14469/ch/191876
  5. H.S. Rzepa, "C 16 H 24", 2016. https://doi.org/10.14469/ch/191874
  6. H.S. Rzepa, and H.S. Rzepa, "C 16 H 24", 2016. https://doi.org/10.14469/ch/191880

How to predict the regioselectivity of epoxide ring opening.

Sunday, April 28th, 2013

I recently got an email from a student asking about the best way of rationalising epoxide ring opening using some form of molecule orbitals. This reminded me of the famous experiment involving propene epoxide.[1]

propenoxide

In the presence of 0.3% NaOH, propene epoxide reacts with ethanol at the unsubstituted carbon (~82% compared with 56% in pure water, with retention of configuration at the other carbon) but in 1.3% H2SO4, the predominant product involves attack of ethanol at the more substituted carbon (presumably with inversion of configuration at that carbon). There are many ways of modelling this, but here I choose a simple one; inspecting the energy of the lowest unoccupied orbital (the one that will interact with the lone pair orbital on the incoming nucleophile). The issue is what kind of orbital that should be? The best to choose in this sort of situation is a localized orbital, an NBO in fact.

NaOH H2SO4
Energy

Energy 0.353 au

Energy

Energy -0.004 au

 

Energy

Energy 0.347 au

 
Energy

Energy -0.061 au

In NaOH solutions (where protonation of the epoxide oxygen is suppressed), the lowest energy unoccupied NBO is the O-C  σ* orbital involving the unsubstituted carbon, but where the oxygen is protonated, it now becomes the O-C σ* orbital involving the substituted carbon.

One can also teach a simpler heuristic, namely that protonation of the epoxide encourages the early formation of a carbocation, and that the most substituted such cation is the most stable. In the absence of protonation, some (small) contribution from an incipient alkoxy anion favours the alkoxide formed on the more stable carbon.

References

  1. H.C. Chitwood, and B.T. Freure, "The Reaction of Propylene Oxide with Alcohols", Journal of the American Chemical Society, vol. 68, pp. 680-683, 1946. https://doi.org/10.1021/ja01208a047