scholarly journals Computational study of the threshold energy for the 1,2-interchange of X and R (X, R = halogens, pseudohalogens, and monovalent hydrocarbon groups) on CH2XCH2R

2016 ◽  
Vol 94 (12) ◽  
pp. 1038-1043 ◽  
Author(s):  
Ju-Sung Kim ◽  
Laura M. Brandt ◽  
George L. Heard ◽  
Bert E. Holmes
Keyword(s):  
Transition State ◽  
Ground State ◽  
Computational Study ◽  
Threshold Energy ◽  
Basis Set ◽  
Isomerization Reaction ◽  
Experimental Investigations ◽  
Carbon Backbone ◽  
Or Groups ◽  
Threshold Energies

Transition state geometries and threshold energies, E0, were computed for an unusual unimolecular isomerization reaction that exchanges two groups (X, R) on CH2XCH2R. An objective is to determine the most energetically feasible interchanges to guide experimental investigations. The interchanging species included halogens (F, Cl, Br) and pseudohalogens and monovalent hydrocarbons (H, SH, CH3, NH2, OH, OCF3, OCH3, CH=CH2, CH2CH3, CH2OH, C≡CH, CH2CF3, CCl3, CF3) attached to a two carbon backbone. Ground state and transition state geometries were optimized with the B3PW91 level of theory and 6-311+G(2d,p) basis set. The Br–Br interchange had the lowest E0 (141 kJ/mol), and CH3–H had the highest E0 (582 kJ/mol). In general, larger atoms or groups with lone pairs of electrons such as halogens, SH, OH, OCH3, OCF3, and NH2 tend to lower the E0 barrier for interchange, making them the most likely to be experimentally observed.

Computational study on the reaction of atomic chlorine with 1,2-dibromoethane (CH2BrCH2Br)

2013 ◽  
Vol 91 (11) ◽  
pp. 1123-1129 ◽  
Author(s):  
Ang-yang Yu
Keyword(s):  
Transition State ◽  
Rate Constants ◽  
Transition State Theory ◽  
Computational Study ◽  
Minimum Energy ◽  
State Theory ◽  
Basis Set ◽  
Stationary Points ◽  
Variational Transition State Theory ◽  
Variational Transition State

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.

Saddle-point geometries and barriers to internal rotation of formamide : an ab initio study

1980 ◽  
Vol 33 (2) ◽  
pp. 249 ◽  
Author(s):  
L Radom ◽  
NV Riggs
Keyword(s):  
Transition State ◽  
Ground State ◽  
Energy Surface ◽  
Saddle Points ◽  
Geometry Optimization ◽  
Internal Motion ◽  
Basis Set ◽  
Minimal Basis ◽  
Experimental Values ◽  
Extended Basis

By use of a direct transition-state program and the STO-3G minimal basis set, two saddle-points are detected on the energy surface for internal motion of formamide. These correspond mainly to rotation about the C-N bond along with some lengthening of this bond and increased pyramidal distortion at nitrogen as compared with that in the ground state. The STO-3G estimates of the barrier height (34-39 kJ mol-1) are in very poor agreement with experimental values (70-90 kJ mol-1), but 4- 31G energy evaluations for the STO-3G-optimized structures give much better estimates (62-80 kJ mol-1). Contrary to a previous report, use of the 4-31G extended basis set for geometry optimization suggests that only the lower-energy member (NH2 cis to CO) of the above pair is a true transition state for internal motion of formamide; its energy relative to that of the 4-31G-optimized ground state (planar) is 83.5 kJ mol-1, very close to the midpoint of the experimental range. The transition state appears to lie in a region of the 4-31G energy surface that is relatively flat with respect to pyramidal distortion at nitrogen; constraining the amino group to planarity raises the calculated energy by only 6.5kJmol-1.

Ab initio studies on amides: triformamide

1981 ◽  
Vol 34 (1) ◽  
pp. 7
Author(s):  
L Radom ◽  
NV Riggs
Keyword(s):  
Double Bond ◽  
Transition State ◽  
Ab Initio ◽  
Internal Rotation ◽  
Direct Observation ◽  
Ground State ◽  
Basis Set ◽  
Model Transition ◽  
Bond Character ◽  
Complete Optimization

Complete optimization with the STO-3G basis set of the geometries of the planar ground-state conformers of the (unknown) triformamide molecule predicts that the E,E,E conformer will be more stable than the E,Z,Z conformer by 12.6 kJ mol-1 (or 42.3 kJ mol-1 by energy evaluations with the 4-31G basis set). These differences make direct observation of the E,Z,Z-conformer unlikely. Corresponding optimization of a model transition state for the conversion of the E,Z,Z into the E,E,E conformer suggests that the barrier to internal rotation is low with a calculated height of 33 kJ mol-1 (24 kJ mol-1 when evaluated with the 4-31G basis set). Successive formyl substitution in ammonia, represented by the series of molecules formamide, diformamide (formimide) and triformamide, leads to decreasing double-bond character in the N-C bonds as reflected in increasing N-C bond lengths, decreasing Mulliken π-overlap populations and decreasing barriers to rotation. Extension of the results for these three molecules suggests that the (known) triacetamide molecule has a non-planar E,E,E-type structure as is consistent with the observation of a single signal in its 1H n.m.r. spectrum.

scholarly journals STUDY OF DOUBLE PROTONS MIGRATION MECHANISM IN SUPRAMOLECULAR STRUCTURES OF ACETIC ACID-WATER AND ACETIC ACID-AMMONIA BY AB INITIO METHOD

2010 ◽  
Vol 3 (2) ◽  
pp. 102-110
Author(s):  
Karna Wijaya ◽  
Iqmal Tahir ◽  
Harnowo Harnowo
Keyword(s):  
Acetic Acid ◽  
Transition State ◽  
Ab Initio ◽  
Computational Study ◽  
Basis Set ◽  
Acid Water ◽  
Product Models ◽  
Migration Mechanism ◽  
Package Program ◽  
Acetic Acid Water

The theoretical study of double protons migration mechanism on acetic acid-water and acetic acid-ammonia associations has been carried out. The research covered determinations the reactant, transition state and product structures. To gain the goal, the research was conducted in three steps, i.e. (i) designing the reactant, transition state and product models, (ii) optimizing of structures, and (iii) calculating of their uncorrected total energy and frequencies with ab initio methods (basis set 6-31G**). All calculations were performed using Hyperchem ver 5.0 for Windows and Gaussian 94W package program. The computational study result showed that the calculated structures were in good agreement with the hypothetical structures.   Keywords: double protons migration, acetic acid, water, ammonia, molecular mechanics and ab-initio

A computational study of the threshold energies of the 1,2-FCl interchange reaction of chlorofluoroethanes

2010 ◽  
Vol 88 (11) ◽  
pp. 1112-1117 ◽  
Author(s):  
William C. Everett ◽  
Bert E. Holmes ◽  
George L. Heard
Keyword(s):  
Carbon Atom ◽  
Thermodynamic Stability ◽  
Relative Stability ◽  
Activation Barrier ◽  
Computational Study ◽  
Basis Set ◽  
Fluorine Substitution ◽  
Interchange Reaction ◽  
Rearrangement Reaction ◽  
Threshold Energies

The 1,2-FCl rearrangement reaction of a series of haloethanes is investigated by comparisons of the optimized ground- and transition-state geometries. Investigation of the effect of level of theory and basis set shows that the trends in threshold energies for rearrangement are reproduced across all levels of theory and basis set, and hence that a moderate level of theory and basis set is adequate for investigating the important trends in this reaction. Threshold barriers increase when a large number of fluorine atoms are attached to the carbon atom bearing the interchanging fluorine, suggesting that the C–F bonds prove difficult to distort to the transition geometry; the increase is smaller for fluorine substitution on the carbon atom bearing the interchanging hydrogen atom. By considering sets of isomeric reactions, the barrier height is shown to closely follow the thermodynamic stability of the alkane undergoing rearrangement; however there is a secondary effect owing to the relative stability of the transition geometry. This relative stability can be related to the thermodynamic stability of a series of isomeric alkenes that resemble the transition geometry without the rearranging atoms. This series of molecules constitute an unusual set owing to the ability to consider these three contributions to the activation barrier separately.

Anisotropy of damage productions in electron irradiated molybdenum

1978 ◽  
Vol 36 (1) ◽  
pp. 354-355
Author(s):  
K. Izui ◽  
S. Furuno ◽  
H. Otsu ◽  
T. Nishida ◽  
H. Maeta
Keyword(s):  
Electron Flux ◽  
Threshold Energy ◽  
High Energy ◽  
Voltage Electron ◽  
High Voltage Electron Microscope ◽  
Displacement Threshold ◽  
The Mean ◽  
Channeling Effect ◽  
Different Origins ◽  
Threshold Energies

Anisotropy of damage productions in crystals due to high energy electron bombardment are caused from two different origins. One is an anisotropic displacement threshold energy, and the other is an anisotropic distribution of electron flux near the atomic rows in crystals due to the electron channeling effect. By the n-beam dynamical calculations for germanium and molybdenum we have shown that electron flux at the atomic positions are from ∽4 to ∽7 times larger than the mean incident flux for the principal zone axis directions of incident 1 MeV electron beams, and concluded that such a locally increased electron flux results in an enhanced damage production. The present paper reports the experimental evidence for the enhanced damage production due to the locally increased electron flux and also the results of measurements of the displacement threshold energies for the <100>,<110> and <111> directions in molybdenum crystals by using a high voltage electron microscope.

A Comprehensive Computational Study on OCH+-Rg (Rg = He, Ne, Ar, Kr, Xe) Complexes

2003 ◽  
Vol 68 (3) ◽  
pp. 489-508 ◽  
Author(s):  
Yinghong Sheng ◽  
Jerzy Leszczynski
Keyword(s):  
Computational Study ◽  
Relativistic Effects ◽  
Dft Method ◽  
Basis Set ◽  
Rare Gas ◽  
Geometrical Parameters ◽  
Minor Effect ◽  
Dissociation Energies ◽  
Equilibrium Geometries

The equilibrium geometries, harmonic vibrational frenquencies, and the dissociation energies of the OCH+-Rg (Rg = He, Ne, Ar, Kr, and Xe) complexes were calculated at the DFT, MP2, MP4, CCSD, and CCSD(T) levels of theory. In the lighter OCH+-Rg (Rg = He, Ne, Ar) rare gas complexes, the DFT and MP4 methods tend to produce longer Rg-H+ distance than the CCSD(T) level value, and the CCSD-calculated Rg-H+ bond lengths are slightly shorter. DFT method is not reliable to study weak interaction in the OCH+-He and OCH+-Ne complexes. A qualitative result can be obtained for OCH+-Ar complex by using the DFT method; however, a higher-level method using a larger basis set is required for the quantitative predictions. For heavier atom (Kr, Xe)-containing complexes, only the CCSD method predicted longer Rg-H+ distance than that obtained at the CCSD(T) level. The DFT method can be applied to obtain the semiquantitative results. The relativistic effects are expected to have minor effect on the geometrical parameters, the H+-C stretching mode, and the dissociation energy. However, the dissociation energies are sensitive to the quality of the basis set. The nature of interaction between the OCH+ ion and Rg atoms was also analyzed in terms of the interaction energy components.

scholarly journals Density Functional Theory and Complete Basis Set Ab Initio Computational Study of Five-, Six-, Seven- and Eight-hydrogen Coordinated Carbon Cations

1999 ◽  
Vol 23 (8) ◽  
pp. 502-503
Author(s):  
Branko S. Jursic
Keyword(s):  
Density Functional Theory ◽  
Ab Initio ◽  
Density Functional ◽  
Computational Study ◽  
Basis Set ◽  
Functional Theory ◽  
Complete Basis ◽  
Complete Basis Set ◽  
High Level

High level ab initio and density functional theory studies are performed on highly protonated methane species.

scholarly journals Photoprotective Properties of Eumelanin: Computational Insights into the Photophysics of a Catechol:Quinone Heterodimer Model System

Photochem ◽  
2021 ◽  
Vol 1 (1) ◽  
pp. 26-37
Author(s):  
Victoria C. Frederick ◽  
Thomas A. Ashy ◽  
Barbara Marchetti ◽  
Michael N. R. Ashfold ◽  
Tolga N. V. Karsili
Keyword(s):  
Ground State ◽  
Sandwich Structure ◽  
Computational Study ◽  
Minimum Energy ◽  
Carbonyl Oxygen ◽  
Model System ◽  
Molecular Structures ◽  
Uv Damage ◽  
Chromosomal Dna ◽  
Relevant Model

Melanins are skin-centered molecular structures that block harmful UV radiation from the sun and help protect chromosomal DNA from UV damage. Understanding the photodynamics of the chromophores that make up eumelanin is therefore paramount. This manuscript presents a multi-reference computational study of the mechanisms responsible for the experimentally observed photostability of a melanin-relevant model heterodimer comprising a catechol (C)–benzoquinone (Q) pair. The present results validate a recently proposed photoinduced intermolecular transfer of an H atom from an OH moiety of C to a carbonyl-oxygen atom of the Q. Photoexcitation of the ground state C:Q heterodimer (which has a π-stacked “sandwich” structure) results in population of a locally excited ππ* state (on Q), which develops increasing charge-transfer (biradical) character as it evolves to a “hinged” minimum energy geometry and drives proton transfer (i.e., net H atom transfer) from C to Q. The study provides further insights into excited state decay mechanisms that could contribute to the photostability afforded by the bulk polymeric structure of eumelanin.

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