| Literature DB >> 32823830 |
Arthur Greenberg1, Alexa R Green1, Joel F Liebman2.
Abstract
A computational study of the structures and energetics ofEntities:
Keywords: N-O bond dissociation enthalpy; amide N-oxides; amine N-oxides; pyridine N-oxide
Mesh:
Substances:
Year: 2020 PMID: 32823830 PMCID: PMC7463812 DOI: 10.3390/molecules25163703
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Relative experimental and computational differences in standard gas-phase enthalpies of formation for three sets of isomers relevant for the present study. In each column, for each set of isomers, the lowest ΔH° (g) was set as 0.0 kcal/mol.
| Molecule | Rel. ΔH°f (g) | Rel. ΔH°f (g) | Rel. ΔH°f (g) |
|---|---|---|---|
| CH3NO2 | 0.0 kcal/mol a | 0.0 kcal/mol | 0.0 kcal/mol |
| CH3ONO | +2.0 kcal/mol a | +0.9 kcal/mol | +3.3 kcal/mol |
| (CH3)2NCH2OH | 0.0 kcal/mol b | 0.0 kcal/mol | 0.0 kcal/mol |
| (CH3)3NO | +41.4 kcal/mol b | +41.3 kcal/mol | +42.5 kcal/mol |
| 2-HO-pyridine | 0.0 kcal/mol c | +1.0 kcal/mol | +0.5 kcal/mol |
| 2-pyridone | +0.7 kcal/mol c | 0.0 kcal/mol | 0.0 kcal/mol |
| pyridine N-oxide | +48.9 kcal/mol c | +43.8 kcal/mol | +50.1 kcal/mol |
a Pedley: ΔH°,g (CH3NO2) = −17.8 kcal/mol; ΔH°,g (CH3ONO) = −15.8 kcal/mol) [19]. b Pedley: ΔH°,g ((CH3)2NCH2OH) = −48.6 ± 1.1 kcal/mol [20] (original source: Acree et al. provide ΔH°,g [(CH3)3NO] = −7.2 ± 1.2 kcal/mol [includes assumed enthalpy of sublimation = 80 kJ/mol (19 kcal/mol)] [14,19]. c Pedley; Lias et al. provide ΔH° (g) (2-hydroxypyridine) = 19.0 ± 0.3 kcal/mol and 19 ± 0.5 kcal/mol, respectively; Lias et al. provides ΔH° (g) (2-pyridone) = 18 ± 0.5 kcal/mol. For pyridine N-oxide, ΔH° (g) = +29.8 kcal/mol [14,17,19,21].
Calculated energies and enthalpies of reaction (kcal/mol) calculated for the isodesmic Equation (1), as well as bond dissociation energies (BDE) for pyridine N-oxide (PNO) and trimethylamine N-oxide (TMAO) (dissociation to amine + 3O) employing six different DFT/Basis Set models.
| BDE (PNO) (kcal/mol) | ΔEr (kcal/mol) | ΔHr (kcal/mol) | BDE (PNO) (kcal/mol) | BDE (TMAO) (kcal/mol) |
|---|---|---|---|---|
| B3LYP/6-31G* | −13.2 | −13.5 | 62.1 | 48.6 |
| B3LYP-6-31G** | −13.2 | −13.5 | 62.2 | 48.7 |
| M06/6-311G+(d,p) | −9.7 | −10.0 | 61.5 | 51.5 |
| B3PW91/6-31G* | −14.3 | −14.7 | 63.8 | 49.1 |
| B3PW91/6-31G** | −14.4 | −14.6 | 63.9 | 49.3 |
| B3PW91/6-311G+(d,p) | −11.1 | −11.8 | 62.7 | 50.9 |
Bond dissociation enthalpy (BDE) scale (XO → X + 3O) and (reverse) transfer thermodynamic reactivity scale (−TTRS: XO → X + ½ O2) (simply the reverse of the scale in Table 19 of reference [14]). All values are in kcal/mol. See Supplemental Information for Kekulé Structures.
| XO (Oxide of Amine, Amide or Other) | BDE (XO → X + 3O) | −TTRS (XO → X + ½ O2) | ||||
|---|---|---|---|---|---|---|
| Exp’t | B3LYP/6-31G* | M06/6-311G+(d,p) | Exp’t | B3LYP/6-31G* | M06/6-311G+(d,p) | |
| CO2 (Carbon dioxide) | 127.3 | 129.5 | 134.9 | 67.7 | 67.8 | 77.8 |
| NO2 (Nitrogen dioxide) | 73.5 | 75.9 | 76.0 | 13.9 | 14.2 | 18.9 |
| 1-Aza-1,3-cyclohexadiene N-oxide a | - | 69.2 | 68.7 | - | 7.5 | 11.6 |
| 1-Azacyclohexene N-oxide a | - | 65.9 | 66.0 | - | 4.2 | 8.9 |
| 2-Carboxylpyridine N-oxide | 65.9 | 64.3 | 62.0 | 6.3 | 2.6 | 4.9 |
| 4-Cyanopyridine N-oxide | 63.5 | 63.1 | 62.1 | 3.9 | 1.4 | 5.0 |
| Pyridine N-oxide (PNO) | 63.4 | 62.1 | 61.5 | 3.8 | 0.4 | 4.4 |
| 3-Cyanopyridine N-oxide | 60.8 | 59.7 | 58.9 | 1.2 | −2.0 | 1.8 |
| 1-Azabicyclo[2.2.2]octane N-oxide | - | 52.8 | 55.7 | - | −8.9 | −1.4 |
| 1-Azaadamantane-2-one N-oxide a | - | 48.8 | 50.3 | - | −12.9 | -6.8 |
| Trimethylamine N-oxide (TMAO) | 61.1 b | 48.6 | 51.5 | 1.5 b | −13.1 | −5.6 |
| 1-Azabicyclo[3.3.2]decane N-oxide a | - | 48.2 | 50.2 | - | −13.5 | −6.9 |
| 1-Azabicyclo[2.2.2]octan-2-one N-oxide a | - | 47.7 | 49.6 | - | −14.1 | −7.5 |
| 1-Azabicyclo[3.3.3]undecane N-oxide a | - | 46.3 | 47.2 | - | −15.4 | −9.9 |
| 1-Azabicyclo[4.3.3]dodecane N-oxide a | - | 39.3 | 40.4 | - | −22.4 | −16.7 |
| 1-Azabicyclo[3.3.1]nonan-2-one N-oxide a | - | 37.2 | 38.8 | - | −24.6 | −28.3 |
| N-Methyl-2-pyrrolidinone N-oxide a | - | 34.6 | 35.8 | - | −27.1 | −21.3 |
| 1-Azabicyclo[3.3.3]undecane-2-one N-oxide a | - | 29.9 | 31.4 | - | −31.8 | −25.7 |
a Compound presently unknown. b See further discussion in text.
Experimental and calculated N-O bond lengths (Angstroms) in pyridine N-oxide (PNO) and trimethylamine N-oxide (TMAO).
| E. Diffraction | Microwave | X-Ray | 6-31G* a | B3LYP/6-31G* b | M06/6-311G+(d,p) b | |
|---|---|---|---|---|---|---|
| PNO | 1.290 ± 0.015 c | 1.278 ± 0.01 d | 1.330 ± 0.009 e | 1.275 b | 1.274 | 1.262 |
| TMAO | 1.379 ± 0.003 a | - | 1.388 ± 0.005 f | 1.370 a | 1.356 | 1.346 |
a See Reference [18]. b This Study. c See Reference [30]. d See Reference [31]. e See Reference [32,33]. f See Reference [34].
Experimental and calculated proton affinities (PA, kcal/mol) of some amines and amine oxides investigated in this study. These data are from a compendium a: values in kJ/mol are divided by 4.184 kJ/kcal to provide data in kcal/mol.
| Amine or Amine Oxide | PA (Exp’t) | PA (B3LYP/6-31G*) | PA [M06/6-311G+(d,p)] |
|---|---|---|---|
| Pyridine N-oxide (PNO) | 220.7 | 220.3 | 216.4 |
| Pyridine | 222.3 | 224.4 | 219.3 |
| Trimethylamine | 226.8 | 226.4 | 220.4 |
| Piperidine | 228.0 | 230.0 | 224.0 |
| 1-Azabicyclo[3.3.3]undecane | 233.9 | 234.0 | 228.0 |
| 1-Azabicyclo[2.2.2]octane | 235.0 | 235.1 | 229.2 |
| Trimethylamine N-Oxide (TMAO) | 235.0 | 238.1 | 231.1 |
| 1-Azabicyclo[3.3.2]decane b | - | 234.7 | 228.5 |
| 1-Azabicyclo[4.3.3]dodecane b | - | 238.9 | 221.4 |
a.See Reference [37]. b.Compounds presently unknown.
Calculated enthalpies (kcal/mol) of oxidation of selected amines or lactams by hydrogen peroxide (H2O2 → H2O) or dimethyldioxirane (DMDO → Acetone).
| Amine or Lactam | H2O2 a | DMDO b | ||
|---|---|---|---|---|
| B3LYP/6-31G* | M06/6-311G+(d,p) | B3LYP/6-31G* | M06/6-311G+(d,p) | |
| Pyridine c | −24.2 | −31.6 | −30.6 | −39.7 |
| Trimethylamine d | −10.7 | −21.6 | −17.1 | −29.7 |
| Quinuclidine | −14.9 | −25.8 | −21.3 | −33.9 |
| Manxine | −8.4 | −17.3 | −14.8 | −25.4 |
| 2-Quinuclidinone | −9.8 | −19.7 | −16.2 | −27.8 |
| 1-Aza-2-adamantanone | −10.9 | −20.4 | −17.3 | −28.5 |
| 2-Manxinone | +8.0 | −1.5 | +1.6 | −9.6 |
| 1-Azabicyclo[3.3.1]-nonanone | +0.7 | −8.9 | −5.7 | −17.0 |
| +3.3 | −5.9 | −3.1 | −14.0 | |
a It is useful to compare experimental [ΔH° (g)] values and calculated values for ground-state H2O2 (−32.5 kcal/mol), H2 (0.0 kcal/mol) and 1Δ+g O2 (22.7 kcal/mol).[21] The experimental enthalpy difference (−55.2 kcal/mol) could be compared with the B3LYP/6-31G* value (−56.6 kcal/mol) and the M06/6-311G+(d,p) value (−68.4 kcal/mol). The latter technique appears to provide an enthalpy for H2O2 that was 13 kcal/mol too high and, as such, appeared to overestimate the exothermicities of H2O2 oxidations by this quantity. b Calculated values for ΔH° (g) for dimethyldioxirane and its isomer were −25.3 kcal/mol and −98.8 kcal/mol, respectively (B3LYP/6-31G* [40]) Corresponding values obtained by Etim, E.E.; Arunan, E. See Reference [41]: dimethyldioxirane: G3, −26.1 kcal/mol; G4MP2, −27.7 kcal/mol; G4, −27.7 kcal/mol; Corresponding values for methyl acetate: G3, −91.7 kcal/mol; G4MP2, −95.1 kcal/mol; and G4, −95.1 kcal/mol. In the present work, the arithmetic means of −26.7 kcal/mol and −95.1 kcal/mol (−98.8 kcal/mol, exp’t) were employed. Comparison of the average for DMDO with the accurate experimental value for methyl acetate yielded an enthalpy difference of −72.1 kcal/mol favoring the ester. The corresponding calculated enthalpy differences were −73.6 kcal/mol (B3LYP/6-31G*) and −83.6 kcal/mol [M06/6-311G+(d,p)]. The latter technique appeared to provide an enthalpy for DMDO that was 10 kcal/mol too high and, as such, appeared to overestimate exothermicities of dimethyldioxirane oxidations by this quantity. c Employing ΔH° (g) = +29.8 kcal/mol for pyridine N-oxide yielded ΔHr = −29.1 kcal/mol for oxidation by H2O2 and –29.0 kcal/mol for oxidation by DMDO (see footnotes a and b above). d Employing ΔH° (g) = −7.2 kcal/mol for trimethylamine N-oxide yielded ΔHr = −26.8 kcal/mol for oxidation by H2O2 and −26.7 kcal/mol for oxidation by DMDO (see footnotes a and b above).
Comparisons between experimental and computational reaction enthalpies (kcal/mol) for the hydrogenation reactions depicted in Equations (7)–(9).
| Reduction Reactions | ΔH1 | ΔH2 | ΔH3 | ΔH1 + ΔH2 + ΔH3 |
|---|---|---|---|---|
| Pyridine (Equation (7)) | ||||
| Experimental | +2.7 | −26.8 | −20.8 | −44.9 |
| B3LYP/6-31G* | +7.2 | −26.9 | −18.3 | −38.0 |
| M06/6-311G+(d,p) | +3.5 | −29.0 | −23.1 | −48.6 |
| Benzene (Equation (8)) | ||||
| Experimental | +5.7 | −26.6 | −28.3 | −49.2 |
| B3LYP/6-31G* | +9.2 | −26.9 | −28.6 | −46.3 |
| M06/6-311G+(d,p) | +5.2 | −28.9 | −30.6 | −54.3 |
| Pyridine N-oxide (Equation (9)) | ||||
| Experimental | n/a | n/a | n/a | n/a |
| B3LYP/6-31G* | +0.1 | −23.6 | −3.5 | −27.0 |
| M06/6-311G+(d,p) | +3.6 | −26.4 | −8.2 | −31.0 |
Experimental and calculated values (kcal/mol) for saturation with 3 mol of H2.
| Molecule | Exp’t | B3LYP/6-31G* | M06/6-311G+(d,p) | B3PW/6-31G* | B3PW/6-31G** | B3PW/6-311G+(d,p) |
|---|---|---|---|---|---|---|
| Benzene | −49.2 | −46.3 | −54.3 | −53.8 | −52.8 | −48.2 |
| Phenol | −45.4 | −45.5 | −54.3 | −52.4 | −51.3 | −48.5 |
| Phenoxide a | −20.2 | −12.9 | −24.7 | −19.1 | −18.3 | −17.6 |
| Pyridine | −44.9 | −38.0 | −48.6 | −45.5 | −45.8 | −43.1 |
| Pyridine-N-oxide | n/a | −24.0 | −38.2 | −30.6 | −30.5 | −31.7 |
a The ΔH° (g) for cyclohexanoxide was estimated by comparison of the values [21] for isopropoxide, isopropanol, and cyclohexanol. The experimental uncertainties [21] listed for phenoxide and isopropoxide were ±10 kJ/mol (ca ± 2.4 kcal/mol). Therefore, the uncertainty for cyclohexanoxide might be as high as ±3 kcal/mol, which combined with the uncertainty for phenoxide yielded an experimental value for the saturation of phenoxide of −20 ± 5 kcal/mol, compatible with all calculational values in this table except for B3LYP/6-31G*.