Solvent effect on the Molecular structure and Global, Local and Dual Descriptors: A Density Functional Theory Study

2021 ◽  
pp. 305-315
Author(s):  
Faiza Lehraki ◽  
Nadjib Melkemi
Keyword(s):  
Density Functional Theory ◽  
Dipole Moment ◽  
Density Functional ◽  
Basis Set ◽  
Frontier Molecular Orbital ◽  
Nucleophilic Attack ◽  
Functional Theory ◽  
Fukui Functions ◽  
Reactivity Descriptors ◽  
Polarized Continuum Model

This study aims to explore the effects of solvent polarity on the geometry, energy of solvation, dipole moment, polarizability, charge distribution, frontier molecular orbital analysis, and global, local, and dual descriptors for β Carboline. The effects of eight solvents were treated using a conductor-like polarized continuum model. Density Functional Theory calculations were performed at B3LYP level at 6-311++g (d,p) basis set. The computed results showed that the dipole moment, polarizability, the solvation free energy, and atomic charge of β Carboline increased with the increasing polarity of the solvent. Also, the solvation modified the values of the reactivity descriptors as a result of the interaction between the solvent and β Carboline. The dual descriptor provided a clearer difference between electrophilic and nucleophilic attack at specific atomic site than presented by Fukui functions of β Carboline.

Theoretical study of 11-thiocyanatoundecanoic acid phenylamide derivatives on corrosion inhibition efficiencies

2014 ◽  
Vol 92 (9) ◽  
pp. 876-887 ◽  
Author(s):  
Seda Sagdinc ◽  
Yesim Kara ◽  
Filiz Kayadibi
Keyword(s):  
Density Functional ◽  
Corrosion Inhibitors ◽  
Energy Gap ◽  
Basis Set ◽  
Inhibitor Molecule ◽  
Functional Theory ◽  
Fukui Functions ◽  
Reactivity Descriptors ◽  
Hartree Fock ◽  
Adsorption Sites

Ab initio Hartree–Fock (HF) and Density Functional Theory (DFT) B3LYP methods with the 6-311G(d,p) basis set were applied to the three 11-thiocyanatoundecanoic acid phenylamide derivatives as corrosion inhibitors. Inhibition efficiency obtained experimentally followed the following order: N-(4-methoxyphenyl)-11-thiocyanatoundecanamide (N3MPTUA) > N-phenyl-11-thiocyanatoundecanamide (NPTUA) > N-(3-nitrophenyl)-11-thiocyanatoundecanamide (N3NPTUA). The molecular parameters most relevant to their potential action as corrosion inhibitors have been calculated in the neutral and protonated forms: EHOMO, ELUMO, energy gap (ΔE), dipole moment (μD), electronegativity (χ), global hardness (η), and the fraction of electrons transferred from the inhibitor molecule to the metallic atom (ΔN). The results of most of the global reactivity descriptors show that the experimental and theoretical studies agree well, and confirm that N3MPTUA is a better inhibitor than NPTUA or N3NPTUA. In addition, the local reactivity, analyzed through Fukui functions, show that the oxygen and nitrogen atoms will be the main adsorption sites.

scholarly journals Conceptual DFT-based Computational Peptidology of Marine Natural Compounds: Discodermins A–H

2020 ◽  
Author(s):  
Norma Flores-Holguín ◽  
Juan Frau ◽  
Daniel Glossman-Mitnik
Keyword(s):  
Density Functional Theory ◽  
Active Sites ◽  
Density Functional ◽  
Homology Model ◽  
Conceptual Density Functional Theory ◽  
Functional Theory ◽  
Fukui Functions ◽  
Reactivity Descriptors ◽  
Qsar Studies ◽  
Biological Targets

A methodology based on the concepts that arise from Density Functional Theory named Conceptual Density Functional Theory (CDFT) was chosen for the calculation of some global and local reactivity descriptors of the Discodermins A-H family of marine peptides through the consideration of the KID (Koopmans in DFT) technique that was successfully used in previous studies of this kind of molecular systems. The determination of active sites of the studied molecules for different kind of reactivities was achieved by resorting to some CDFT-based descriptors like the Fukui functions as well as the Parr functions derived from Molecular Electron Density Theory (MEDT). A few properties identified with their ability to behave as a drug and the bioactivity of the peptides considered in this examination were acquired by depending on a homology model by studying the correlation with the known bioactivity of related molecules in their interaction with various biological receptors. With the further object of analyzing their bioactivity some parameters of usefulness for future QSAR studies, their predicted biological targets and the the ADME (Absorption, Distribution, Metabolism, and Excretion) parameters related to the Discodermins A-H pharmacokinetics are also reported.

The ozonolysis of ortho-xylene and its relevance to the history of the benzene problem

2001 ◽  
Vol 79 (8) ◽  
pp. 1278-1283 ◽  
Author(s):  
Saul Wolfe ◽  
Zheng Shi
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Transition States ◽  
Historical Analysis ◽  
Valence Bond ◽  
Basis Set ◽  
Frontier Molecular Orbital ◽  
Initial Attack ◽  
Orbital Theory ◽  
Functional Theory

Using B3LYP density functional theory in conjunction with the 6-311++G** basis set, the relative rates of the initial rate-determining attack of ozone upon the carbon—carbon bonds of o-xylene are found to be 4,5- [Formula: see text] 3,4- > 2,3- > 1,2-. With the assumption that the final products glyoxal (G), methylglyoxal (M), and dimethylglyoxal (D) are determined by the site of the initial attack, and taking statistical factors into account, the ratio G:M:D is calculated to be 3:2:1. This is close to the value found experimentally, and identical to the result predicted by the contention that two nearly equivalent Kekulé–Pauling valence bond (resonance) structures of o-xylene exist and each localized carbon—carbon double bond of these structures is oxidized at the same rate. Although Frontier Molecular Orbital theory also predicts a 3:2:1 ratio of G:M:D, this theory incorrectly predicts that the initial attack of ozone will take place at the 1,2- and 4,5- bonds, with 1,2-attack slightly preferred. These results are discussed in relation to a recent historical analysis of the benzene problem, and it is concluded that since the products of ozonolysis of o-xylene are determined by the relative energies of the transition states leading to the four possible primary ozonides, these transition states should be the focus of theory.Key words: Kekulé structure, resonance, frontier orbital theory, density functional theory, kinetics.

On the performance of density functional theory methods in the prediction of the electric polarizability and hyperpolarizability of ozone

2005 ◽  
Vol 1 (1) ◽  
pp. 31-36 ◽  
Author(s):  
George Maroulis
Keyword(s):  
Density Functional Theory ◽  
Dipole Moment ◽  
Ab Initio ◽  
Density Functional ◽  
Basis Set ◽  
Dft Methods ◽  
Functional Theory ◽  
Electric Polarizability ◽  
Rigorous Approach ◽  
High Level

We report a study of the performance of density functional theory (DFT) methods in the prediction of electric properties for the ozone molecule. We have used a large, flexible basis set for the calculation of the dipole moment and the dipole (hyper)polarizability with the B1LYP, B3LYP, B3P86, B3PW91, G96PW91 and MPW91PW91 methods. The results are compared to high-level, conventional ab initiomethods. We rely on a rigorous approach in order to evaluate the proximity and similarity of theoretical descriptions obtained via DFT and conventional ab initiomethods. We find that compared to the most accurate ab initio, DFT methods predict reliable dipole polarizabilities and second dipole hyperpolarizabilities for ozone. Agreement is less good for the dipole moment and the first dipole hyperpolarizability. Overall, the performance of the DFT is similar to that of the accurate ab initiomethods.

scholarly journals Molecular Structures and Spectral Properties of Natural Indigo and Indirubin: Experimental and DFT Studies

Molecules ◽  
2019 ◽  
Vol 24 (21) ◽  
pp. 3831 ◽  
Author(s):  
Zixin Ju ◽  
Jie Sun ◽  
Yanping Liu
Keyword(s):  
Density Functional Theory ◽  
Spectral Properties ◽  
Density Functional ◽  
Dft Method ◽  
Molecular Structures ◽  
Basis Set ◽  
Frontier Molecular Orbital ◽  
Visible Absorption ◽  
Functional Theory ◽  
Uv Visible

This paper presents a comparative study on natural indigo and indirubin in terms of molecular structures and spectral properties by using both computational and experimental methods. The spectral properties were analyzed with Fourier transform infrared (FTIR), Raman, UV-Visible, and fluorescence techniques. The density functional theory (DFT) method with B3LYP using 6-311G(d,p) basis set was utilized to obtain their optimized geometric structures and calculate the molecular electrostatic potential, frontier molecular orbitals, FTIR, and Raman spectra. The single-excitation configuration interaction (CIS), time-dependent density functional theory (TD-DFT), and polarization continuum model (PCM) were used to optimize the excited state structure and calculate the UV-Visible absorption and fluorescence spectra of the two molecules at B3LYP/6-311G(d,p) level. The results showed that all computational spectra agreed well with the experimental results. It was found that the same vibrational mode presents a lower frequency in indigo than that in indirubin. The frontier molecular orbital analysis demonstrated that the UV-Visible absorption and fluorescence bands of indigo and indirubin are mainly derived from π → π* transition. The results also implied that the indigo molecule is more conjugated and planar than indirubin, thereby exhibiting a longer maximum absorption wavelength and stronger fluorescence peak.

scholarly journals DFT and TD-DFT Study of Only First Diaminomalenonitrile Based Molecular Receptor for Fluoride Anion: Correlation of Calculated and Experimental Results

2021 ◽  
Vol 13 (3) ◽  
pp. 923-933
Author(s):  
M. A. Kaloo ◽  
H. Bashir ◽  
M. A. Rather ◽  
S. A. Majid ◽  
B. A. Bhat
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Energy Gap ◽  
Atomic Orbital ◽  
Basis Set ◽  
Frontier Molecular Orbital ◽  
Fluoride Anion ◽  
Functional Theory ◽  
Sensing Mechanism ◽  
Td Dft

In this work, the sensing mechanism of a novel anion receptor, 2-amino-((E)-(4-cyanobenzalidine) amino) maleonitrile reported by Sankar et al. (Analyst 138:4760-4763, 2013) was investigated theoretically with the help of density functional theory (DFT) and time-dependent density functional theory (TD-DFT). From the frontier molecular orbital analysis, it is reasonable to support the proposed charge transfer (ICT) enhancement in the receptor molecule in the presence of F−. A significant reduction in the energy gap (ΔE) from 4.014 eV to 2.342eV between highest occupied and lowest unoccupied energy levels was revealed, leading to the strong redshift of its absorption characteristics. Moreover, 1H NMR was also calculated to further understand the mechanistic insights by using the gauge independent atomic orbital (GIAO) method with B3LYP methods and the 6-311++G (d,p) basis set. The spectra were simulated, and the chemical shifts linked to TMS were compared with experimental. Besides, Intrinsic Reaction Coordinates (IRC) were also calculated to understand the sensing mechanism.

scholarly journals Conceptual DFT-Based Computational Peptidology of Marine Natural Compounds: Discodermins A–H

Molecules ◽  
2020 ◽  
Vol 25 (18) ◽  
pp. 4158
Author(s):  
Norma Flores-Holguín ◽  
Juan Frau ◽  
Daniel Glossman-Mitnik
Keyword(s):  
Density Functional Theory ◽  
Active Sites ◽  
Density Functional ◽  
Homology Model ◽  
Conceptual Density Functional Theory ◽  
Functional Theory ◽  
Fukui Functions ◽  
Reactivity Descriptors ◽  
Qsar Studies ◽  
Biological Targets

A methodology based on the concepts that arise from Density Functional Theory named Conceptual Density Functional Theory (CDFT) was chosen for the calculation of some global and local reactivity descriptors of the Discodermins A–H family of marine peptides through the consideration of the KID (Koopmans in DFT) technique that was successfully used in previous studies of this kind of molecular systems. The determination of active sites of the studied molecules for different kinds of reactivities was achieved by resorting to some CDFT-based descriptors like the Fukui functions as well as the Parr functions derived from Molecular Electron Density Theory (MEDT). A few properties identified with their ability to behave as a drug and the bioactivity of the peptides considered in this examination were acquired by depending on a homology model by studying the correlation with the known bioactivity of related molecules in their interaction with various biological receptors. With the further object of analyzing their bioactivity, some parameters of usefulness for future QSAR studies, their predicted biological targets, and the ADME (Absorption, Distribution, Metabolism, and Excretion) parameters related to the Discodermins A–H pharmacokinetics are also reported.

scholarly journals Chemical-Reactivity Properties, Drug Likeness, and Bioactivity Scores of Seragamides A–F Anticancer Marine Peptides: Conceptual Density Functional Theory Viewpoint

Computation ◽  
2019 ◽  
Vol 7 (3) ◽  
pp. 52 ◽  
Author(s):  
Norma Flores-Holguín ◽  
Juan Frau ◽  
Daniel Glossman-Mitnik
Keyword(s):  
Density Functional Theory ◽  
Active Sites ◽  
Density Functional ◽  
Chemical Reactivity ◽  
Drug Repurposing ◽  
Chemical Hardness ◽  
Conceptual Density Functional Theory ◽  
Functional Theory ◽  
Fukui Functions ◽  
Reactivity Descriptors

A methodology based on concepts that arose from Density Functional Theory (CDFT) was chosen for the calculation of global and local reactivity descriptors of the Seragamide family of marine anticancer peptides. Determination of active sites for the molecules was achieved by resorting to some descriptors within Molecular Electron Density Theory (MEDT) such as Fukui functions. The pKas of the six studied peptides were established using a proposed relationship between this property and calculated chemical hardness. The drug likenesses and bioactivity properties of the peptides considered in this study were obtained by resorting to a homology model by comparison with the bioactivity of related molecules in their interaction with different receptors. With the object of analyzing the concept of drug repurposing, a study of potential AGE-inhibition abilities of Seragamides peptides was pursued by comparison with well-known drugs that are already available as pharmaceuticals.

scholarly journals X-ray diffraction and Density Functional Theory based structural analyses of 2-phenyl-4-(prop-2-yn-1-yl)-1,2,4-triazolone

2021 ◽  
Vol 12 (4) ◽  
pp. 459-468
Author(s):  
Shilpa Mallappa Somagond ◽  
Ahmedraza Mavazzan ◽  
Suresh Fakkirappa Madar ◽  
Madivalagouda Sannaikar ◽  
Shankar Madan Kumar ◽  
...  
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Energy Gap ◽  
Basis Set ◽  
Frontier Molecular Orbital ◽  
Geometrical Parameters ◽  
Monoclinic Space Group ◽  
X Ray Diffraction ◽  
Functional Theory ◽  
X Ray

This study is composed of X-ray diffraction and Density Functional Theory (DFT) based molecular structural analyses of 2-phenyl-4-(prop-2-yn-1-yl)-2,4-dihydro-3H-1,2,4-triazol-3-one (2PPT). Crystal data for C11H9N3O: Monoclinic, space group P21/c (no. 14), a = 7.8975(2) Å, b = 11.6546(4) Å, c = 11.0648(3) Å, β = 105.212(2)°, V = 982.74(5) Å3, Z = 4, T = 296.15 K, μ(MoKα) = 0.091 mm-1, Dcalc = 1.346 g/cm3, 13460 reflections measured (5.174° ≤ 2Θ ≤ 64.72°), 3477 unique (Rint = 0.0314, Rsigma = 0.0298) which were used in all calculations. The final R1 was 0.0470 (I > 2σ(I)) and wR2 was 0.1368 (all data). The experimentally determined data was supported by theoretically optimized calculations processed with the help of Hartree-Fock (HF) technique and Density Functional Theory with the 6-311G(d,p) basis set in the ground state. Geometrical parameters (Bond lengths and angles) as well as spectroscopic (FT-IR, 1H NMR, and 13C NMR) properties of 2PPT molecule has been optimized theoretically and compared with the experimentally obtained results. Hirshfeld surface analysis with 2D fingerprinting plots was used to figure out the possible and most significant intermolecular interactions. The electronic characterizations such as molecular electrostatic potential map (MEP) and Frontier molecular orbital (FMO) energies have been studied by DFT/B3LYP approach. The MEP imparted the detailed information regarding electronegative and electropositive regions across the molecule. The HOMO-LUMO energy gap as high as 5.3601 eV was found to be responsible for the high kinetic stability of the 2PPT.

scholarly journals Density Functional Theory Reactivity Studies on X3N@C80 (X = Sc, Gd, Lu) Fullerenes

2021 ◽  
Vol 33 (4) ◽  
pp. 814-818
Author(s):  
P. Selvarengan
Keyword(s):  
Density Functional Theory ◽  
Charge Transfer ◽  
Density Functional ◽  
Nucleophilic Attack ◽  
Spin Multiplicity ◽  
Functional Theory ◽  
Endohedral Fullerenes ◽  
Fukui Functions ◽  
Condensed Fukui Functions ◽  
Homo Lumo

Density functional theory studies have been performed to reveal the reactivity of the sites in Sc3N@C80, Gd3N@C80 and Lu3N@C80 endohedral fullerenes. The condensed Fukui functions have been calculated using Mulliken atomic charges. The calculations show that the carbon atom sites are in direct contact with the endohedral cluster favourable nucleophilic attack. Similarly, the carbon atoms which are away from the direct bonding with the cluster are favourable for the electrophilic attack. This is also confirmed from the charge transfer analysis. It is noted that the spin multiplicity decides the reactivity sites and stability of the Gd3N@C80 system. The HOMO-LUMO gap value indicates that Gd3N@C80 with S = 7 is stable than the S = 21 system. Finally, present studies indicate that the charge transfer between the C80 cage and X3N plays a major role to determine the reactivity of the sites in the C80 cage.

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