scholarly journals Computational Study of PmHMGR Thiohemiacetal Breakdown Transition State

2021 ◽  
Vol 120 (3) ◽  
pp. 269a
Author(s):  
Himani Patel
2019 ◽  
Vol 97 (7) ◽  
pp. 529-537 ◽  
Author(s):  
Richard J. Puddephatt

The isomerization and reductive elimination reactions from octahedral organometallic complexes of palladium(IV) and platinum(IV) usually occur through five-coordinate intermediates that cannot be directly detected. This paper reports a computational study of five-coordinate complexes of formulae [PtMe3(bipy)]+, [PtMe2Ph(bipy)]+, and [PtMe(CH2CMe2C6H4)(bipy)]+ (M = Pd or Pt, bipy = 2,2′-bipyridine), particularly with respect to reactivity and selectivity in reductive elimination. All of the complexes are predicted to have square pyramidal structures with the bipy and two R groups in the equatorial positions and one R group in the axial position, and axial–equatorial exchange occurs by a pairwise mechanism, with the transition state having a pinched trigonal bipyramidal (PTBP) stereochemistry, with one nitrogen and two R groups in the trigonal plane. The activation energy for isomerization is lower than that for reductive elimination in all cases. For the complexes [MMe2Ph(bipy)]+, the activation energies for reductive elimination with Me–Me or Me–Ph coupling are similar. For the complexes [MMe(CH2CMe2C6H4)(bipy)]+, the reductive elimination with Me–C6H4 bond formation from the isomer with the methyl group in the axial position is predicted and is attributed to it having the best conformation of the Me and C6H4 groups for C–C bond formation. In all cases, the selectivity for reductive elimination is similar for M = Pd or Pt, but reactivity is higher for M = Pd. The relevance of this work to selectivity in catalysis is discussed.


2017 ◽  
Vol 82 (7-8) ◽  
pp. 841-850
Author(s):  
Mohammad Taqavian ◽  
Daryoush Abedi ◽  
Fatemeh Zigheimat ◽  
Leila Zeidabadinejad

Ab initio and DFT calculations have been carried out to study the reaction mechanism between interferons (IFNs) ?-2a, ?-2b and ?-1a and polyethylene glycol (PEG) group. The calculations show that the mechanisms are concerted, in agreement with the results of experimental works. However, although it appears that there is one single transition state, the characteristics of its structure reveal a very synchronous reaction mechanism. The reactions are clearly exothermic and as well have feasible activation energies. Our computational study shows that the lowest transition state energies are related to Lys 134, His 34 and Met 1 of IFN-?-2a, IFN-?-2b and IFN-?-1a, respectively.


2020 ◽  
Author(s):  
Zoi Salta ◽  
Marc E. Segovia ◽  
Aline Katz ◽  
Nicola Tasinato ◽  
Vincenzo Barone ◽  
...  

Thione S-methylide (TSM), the parent species of the thiocarbonyl ylide family, is a 1,3-dipolar, planar species on the [C2SH4] potential energy surface (PES), which has not shared the richness of studies dedicated to its isomers, the cyclic thiirane (THI), and the keto-enol pair vinyl thiol (VTH)/thioacetaldehyde (THA). While the conrotatory ring closure reaction toward THI was studied in the ‘90s, no complete analysis of the PES is available in the literature. In the present paper, we report a computational study of the reaction scheme linking all species on that PES. We employ several levels of calculation, ranging from density functional theory (DFT), through CCSD(T) based composite schemes, to CASSCF/CASPT2 multi-reference procedures, to find the best description of TSM, its isomers, and the transition states (TSs) ruling their interconversion. Fragmentation of TSM, THA and THI were investigated and compared to the available experimental information. We found that the B2PLYP-D3 functional, contrary to M06-2XD3 or B97X-D, describes well the geometry of both TSM and the transition state connecting it to THI. The reverse barrier, from THI to TSM, amounts to 52.2 kcal mol-1 (to be compared to 17.6 kcal mol-1 for the direct one), thus explaining why, in general, thiocarbonyl ylides cannot be prepared from thiiranes. Conversion of THI to VTH implies also a large barrier, explaining why the reaction has been observed only at high temperatures. The fragmentation of THI to S(3P) or S(1D) and ethylene was also explored, together with the decomposition to H2S plus acetylene. Open species, both in triplet and singlet states, were identified as intermediates in the fragmentations, and their energies were found to be lower than the transition state for the isomerization of THI to VTH, thus explaining the preference for fragmentation over isomerization at relatively low temperatures.


2020 ◽  
Author(s):  
Veejendra Yadav

In comparison to the popular pathway involving proton-transfer via a four-centred cyclic transition state structure, the recently proposed overall lower energy pathway involving proton-transfer via a seven-centred cyclic transition state structure followed by Hofmann elimination for the Me<sub>3</sub>N-catalyzed Morita-Baylis-Hillman reaction is applicable to the DABCO-catalyzed reaction equally well. This finding clearly establishes that the zwitterion at the bridge-head in DABCO is well tolerated. Also, the activation free energy of the rate-limiting aldol reaction under DABCO-catalysis is lower than that under Me<sub>3</sub>N-catalysis, suggesting that DABCO is likely a better catalyst to achieve faster conversion.


2017 ◽  
Author(s):  
Curt Wentrup ◽  
Didier Begue ◽  
Regis Leung-Toung

<p>The rearrangements of ethynamine <b>3</b> (H-CºC-NH<sub>2</sub>) to ketenimine <b>4</b> (CH<sub>2</sub>=C=NH) and acetonitrile <b>5</b> (CH<sub>3</sub>CN) were investigated computationally up to the MP4(SDTQ)/6-31G*//MP2(FU)/6-31G* level. The calculated barrier for a concerted reaction <b>3</b> -> <b>4</b> is very high, 74 kcal/mol, the structure of the transition state very unusual, and this path is discredited. A lower barrier of about 60 kcal/mol via aminovinylidene <b>2</b> and imidoylcarbene <b>15</b> has been found. The calculated barrier for a concerted second step <b>4 </b>-><b> 5</b> is 61 kcal/mol, and the transition state structure is again very unusual with a virtually linear CCN backbone, but this does not appear to correspond to physical reality. Instead, CASPT2 calculations predict reaction via vinylnitrene <b>9</b> and/or homolysis of <b>4 </b>to the radical pair ·CH<sub>2</sub>CN + H· (<b>11</b>) with a barrier of 67-70 kcal/mol in agreement with experimental shock-tube data. Recombination (maybe via roaming) affords acetonitrile <b>5</b>. There is strong experimental evidence for homolytic paths in pas-phase pyrolyses of ketenimines.</p>


2013 ◽  
Vol 91 (11) ◽  
pp. 1123-1129 ◽  
Author(s):  
Ang-yang Yu

In this work, the reaction mechanism and kinetics of Cl + CH2BrCH2Br → products are theoretically investigated for the first time. The optimized geometries and frequencies of all of the stationary points and selected points along the minimum-energy path for the three hydrogen abstraction channels and two bromine abstraction channels are calculated at the BH&H-LYP level with the 6-311G** basis set and the energy profiles are further calculated at the CCSD(T) level of theory. The rate constants are evaluated using the conventional transition-state theory, the canonical variational transition-state theory, and the canonical variational transition-state theory with a small-curvature tunneling correction over the temperature range 200–1000 K. The results show that reaction channel 3 is the primary channel and the calculated rate constants are in good agreement with available experimental values. The three-parameter Arrhenius expression for the total rate constants over 200–1000 K is provided.


Author(s):  
Curt Wentrup ◽  
Didier Begue ◽  
Regis Leung-Toung

<p>The rearrangements of ethynamine <b>3</b> (H-CºC-NH<sub>2</sub>) to ketenimine <b>4</b> (CH<sub>2</sub>=C=NH) and acetonitrile <b>5</b> (CH<sub>3</sub>CN) were investigated computationally up to the MP4(SDTQ)/6-31G*//MP2(FU)/6-31G* level. The calculated barrier for a concerted reaction <b>3</b> -> <b>4</b> is very high, 74 kcal/mol, the structure of the transition state very unusual, and this path is discredited. A lower barrier of about 60 kcal/mol via aminovinylidene <b>2</b> and imidoylcarbene <b>15</b> has been found. The calculated barrier for a concerted second step <b>4 </b>-><b> 5</b> is 61 kcal/mol, and the transition state structure is again very unusual with a virtually linear CCN backbone, but this does not appear to correspond to physical reality. Instead, CASPT2 calculations predict reaction via vinylnitrene <b>9</b> and/or homolysis of <b>4 </b>to the radical pair ·CH<sub>2</sub>CN + H· (<b>11</b>) with a barrier of 67-70 kcal/mol in agreement with experimental shock-tube data. Recombination (maybe via roaming) affords acetonitrile <b>5</b>. There is strong experimental evidence for homolytic paths in pas-phase pyrolyses of ketenimines.</p>


2017 ◽  
Vol 16 (05) ◽  
pp. 1750046 ◽  
Author(s):  
Vijay M. Miriyala ◽  
Priya Bhasi ◽  
Zanele P. Nhlabatsi ◽  
Sanyasi Sitha

Using computational calculations, we have revisited the potential energy surface (PES) of the reaction between OH and SO2, which is believed as the rate-limiting step in the atmospheric formation of H2SO4. In this work, we report for the first time the presence of a pre-reaction hydrogen-bonded complex between OH and SO2 in the reaction PES. Based on this finding, it has been shown that the reaction can be considered as a two-step process in which the first step is the formation of the pre-reaction complex and the second step is the transformation of this complex to the product. It was observed that due to the presence of this pre-reaction complex as a potential well in the reaction PES, the barrier height got increased by around two-fold for the second step. Based on this observation, it has been proposed that the kinetics of the reaction is going to be affected. Also based on the analysis of the geometries of this pre-reaction complex and the transition state, it has been argued that the step involving the transformation of this pre-reaction complex to the product via the transition state is going to be the slowest step as this transformation involves large structural changes of the stationary points involved.


Sign in / Sign up

Export Citation Format

Share Document