Ab initio study of the decomposition of formamidine

2005 ◽  
Vol 83 (12) ◽  
pp. 2082-2090 ◽  
Author(s):  
M H Almatarneh ◽  
C G Flinn ◽  
R A Poirier

The decomposition of formamidine yielding hydrogen cyanide and ammonia has been investigated by ab initio calculations. Optimized geometries for reactants, transition states, and products were determined at the HF/6-31G(d) and MP2/6-31G(d) levels of theory. Energies were also determined at the G1, G2, G2MP2, G3, G3B3, G3MP2, and G3MP2B3 levels of theory. The role of water in the decomposition reaction of formamidine was examined. Intrinsic reaction coordinate (IRC) analysis was carried out for all transition states. Activation energies, enthalpies and free energies of activation were also calculated for each reaction pathway. G3 level of theory predicts the gas-phase decomposition of formamidine to have a high activation energy of 259.1 kJ mol–1. Adding one water molecule catalyses the reaction by forming a cyclic hydrogen-bonded transition state, reducing the barrier to 169.4 kJ mol–1 at the G3 level. Addition of a second water, which acts as a "solvent" molecule, further reduces the barrier to 151.1 kJ mol–1 at the G3 level. These values are still high and explain why rather extreme conditions are necessary to achieve this reaction experimentally. Thermodynamic properties (ΔE, ΔH, and ΔG) for each reaction pathway studied were also calculated. The G3 heats of reaction (ΔE) of the gas-phase decomposition of formamidine, its complex with one water molecule, and its complex with two water molecules are 0.9, 2.2, and –5.1 kJ mol –1, respectively. The G3 heat of reaction for the gas-phase decomposition to yield separated products is 22.3 kJ mol–1. Free energies of reaction and of activation in aqueous solution were calculated with PCM using the KLAMT cavity model. At MP2 the formamidine reaction is found to be exergonic in aqueous solution and to favour formation of the separated products (NH3 + HCN). The solvent model predicts a significant lowering of the free energy of activation (16–18 kJ mol–1) for the unimolecular reaction and 21–42 kJ mol–1 for the water-mediated reaction in aqueous solution relative to the gas phase. Key words: decomposition reaction, formamidine, Hartree–Fock, post Hartree–Fock, Gaussian-n theories, IRC, solvation models, PCM, KLAMT.

2005 ◽  
Vol 70 (11) ◽  
pp. 1769-1786 ◽  
Author(s):  
Luc A. Vannier ◽  
Chunxiang Yao ◽  
František Tureček

A computational study at correlated levels of theory is reported to address the structures and energetics of transient radicals produced by hydrogen atom abstraction from C-1, C-2, C-3, C-4, C-5, O-1, O-3, and O-5 positions in 2-deoxyribofuranose in the gas phase and in aqueous solution. In general, the carbon-centered radicals are found to be thermodynamically and kinetically more stable than the oxygen-centered ones. The most stable gas-phase radical, 2-deoxyribofuranos-5-yl (5), is produced by H-atom abstraction from C-5 and stabilized by an intramolecular hydrogen bond between the O-5 hydroxy group and O-1. The order of radical stabilities is altered in aqueous solution due to different solvation free energies. These prefer conformers that lack intramolecular hydrogen bonds and expose O-H bonds to the solvent. Carbon-centered deoxyribose radicals can undergo competitive dissociations by loss of H atoms, OH radical, or by ring cleavages that all require threshold dissociation or transition state energies >100 kJ mol-1. This points to largely non-specific dissociations of 2-deoxyribose radicals when produced by exothermic hydrogen atom abstraction from the saccharide molecule. Oxygen-centered 2-deoxyribose radicals show only marginal thermodynamic and kinetic stability and are expected to readily fragment upon formation.


2019 ◽  
Author(s):  
Zoi Salta ◽  
Agnie M. Kosmas ◽  
Oscar Ventura ◽  
Vincenzo Barone

<p>The dehalogenation of 2-chloroethanol (2ClEtOH) in gas phase with and without participation of catalytic water molecules has been investigated using methods rooted into the density functional theory. The well-known HCl elimination leading to vinyl alcohol (VA) was compared to the alternative elimination route towards oxirane and shown to be kinetically and thermodynamically more favorable. However, the isomerization of VA to acetaldehyde in the gas phase, in the absence of water, was shown to be kinetically and thermodynamically less favorable than the recombination of VA and HCl to form the isomeric 1-chloroethanol (1ClEtOH) species. This species is more stable than 2ClEtOH by about 6 kcal mol<sup>-1</sup>, and the reaction barrier is 22 kcal mol<sup>-1</sup> vs 55 kcal mol<sup>-1</sup> for the direct transformation of VA to acetaldehyde. In a successive step, 1ClEtOH can decompose directly to acetaldehyde and HCl with a lower barrier (29 kcal mol<sup>-1</sup>) than that of VA to the same products (55 kcal mol<sup>-1</sup>). The calculations were repeated using a single ancillary water molecule (W) in the complexes 2ClEtOH_W and 1ClEtOH_W. The latter adduct is now more stable than 2ClEtOH_W by about 8 kcal mol<sup>-1</sup>, implying that the water molecule increased the already higher stability of 1ClEtOH in the gas phase. However, this catalytic water molecule lowers dramatically the barrier for the interconversion of VA to acetaldehyde (from 55 to 6 kcal mol<sup>-1</sup>). This barrier is now smaller than the one for the conversion to 1ClEtOH (which also decreases, but not so much, from 22 to 12 kcal mol<sup>-1</sup>). Thus, it is concluded that while 1ClEtOH may be a plausible intermediate in the gas phase dehalogenation of 2ClEtOH, it is unlikely that it plays a major role in water complexes (or, by inference, aqueous solution). It is also shown that neither in the gas phase nor in the cluster with one water molecule, the oxirane path is competitive with the VA alcohol path.</p>


2017 ◽  
Vol 42 (1) ◽  
pp. 36-43 ◽  
Author(s):  
Mohammad Khavani ◽  
Javad Karimi

The kinetics and mechanism of the thermal decomposition reaction of 3-oxetanone in the gas phase were studied using quantum chemical calculations. The major products of this reaction are formaldehyde, ketene, carbon monoxide, ethylene oxide, ethylene and methyl radical. Formaldehyde, ketene, carbon monoxide and ethylene oxide are the initial decomposition products and other species are the products of ethylene oxide decomposition. The results of B3LYP and QCISD(T) calculations reveal that thermal decomposition of 3-oxetanone to ethylene oxide and carbon monoxide is more probable than to formaldehyde and ketene from an energy viewpoint. Moreover, quantum theory of atoms in molecules and natural bond orbital analysis indicate that 3-oxetanone decomposition to formaldehyde, ketene, carbon monoxide and ethylene occurs via a concerted mechanism and bonds that are involved in the transition states have a covalent character. Moreover, the calculated changes in bond lengths in the transition states reveal that bond breaking and new bond formation occur asynchronously in a concerted mechanism.


1995 ◽  
Vol 60 (4) ◽  
pp. 969-976 ◽  
Author(s):  
C. Alhambra ◽  
F. J. Luque ◽  
J. Estelrich ◽  
Modesto Orozco

2019 ◽  
Vol 21 (2) ◽  
pp. 537-545 ◽  
Author(s):  
Linxing Zhang ◽  
Xinhao Zhang ◽  
Yun-Dong Wu ◽  
Yaoming Xie ◽  
Jon M. Fukuto ◽  
...  

The theoretical study of small molecule RSSH reveals that a protein environment surrounding the protein-SSH species will likely dictate the reaction pathway.


2003 ◽  
Vol 2003 (2) ◽  
pp. 91-95 ◽  
Author(s):  
E. Rajaeian ◽  
M. Monajjemi ◽  
M.R. Gholami

Ab initio molecular orbital calculations have been used to investigate the structures and the transition states of 1,3-dipolar cycloadditions between benzonitrile oxide with ethylene, cyclopentene, acrylonitrile and tetracyanoethylene in heptane and water: calculations reveal enhanced hydrogen bonding of a water molecule to the transition states for the cycloaddition 1,3-dipolar of reaction of benzonitrile oxide with cyclopentene, the optimal interaction energies being 0.7 kcal/mol more favourable for hydrogen bonding to the oxygen atom in the transition states than for the reactants.


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