scholarly journals Coordination Behavior of Ni2+, Cu2+, and Zn2+ in Tetrahedral 1-Methylimidazole Complexes: A DFT/CSD Study

2018 ◽  
Vol 2018 ◽  
pp. 1-8 ◽  
Author(s):  
Samuel Tetteh
Keyword(s):  
Density Functional ◽  
Population Analysis ◽  
Substantial Reduction ◽  
Nbo Analysis ◽  
Basis Sets ◽  
Dft Methods ◽  
Functional Theory ◽  
Formal Charge ◽  
Coordination Behavior ◽  
The Stability

The interaction between nickel (Ni2+), copper (Cu2+), and zinc (Zn2+) ions and 1-methylimidazole has been studied by exploring the geometries of eleven crystal structures in the Cambridge Structural Database (CSD). The coordination behavior of the respective ions was further investigated by means of density functional theory (DFT) methods. The gas-phase complexes were fully optimized using B3LYP/GENECP functionals with 6-31G∗ and LANL2DZ basis sets. The Ni2+ and Cu2+ complexes show distorted tetrahedral geometries around the central ions, with Zn2+ being a perfect tetrahedron. Natural bond orbital (NBO) analysis and natural population analysis (NPA) show substantial reduction in the formal charge on the respective ions. The interaction between metal d-orbitals (donor) and ligand orbitals (acceptor) was also explored using second-order perturbation of the Fock matrix. These interactions followed the order Ni2+ > Cu2+ > Zn2+ with Zn2+ having the least interaction with the ligand orbitals. Examination of the frontier orbitals shows the stability of the complexes in the order Ni2+ > Cu2+ < Zn2+ which is consistent with the Irving–Williams series.

THE ORIGIN OF THE ROTATIONAL BARRIER IN DIMETHYL ETHER AND DIMETHYL SULFIDE: A THEORETICAL STUDY

2007 ◽  
Vol 06 (03) ◽  
pp. 421-434 ◽  
Author(s):  
JÍMENEZ-FABIAN ◽  
A. F. JALBOUT
Keyword(s):  
Dimethyl Ether ◽  
Density Functional ◽  
Dimethyl Sulfide ◽  
Nbo Analysis ◽  
Rotational Barrier ◽  
Basis Sets ◽  
Functional Theory ◽  
Hartree Fock ◽  
Torsional Potential ◽  
Methyl Rotation

The torsional potential function for methyl rotation in dimethyl ether (DME) and dimethyl sulfide (DMS) has been determined by utilizing ab initio (Hartree–Fock and MP2) and density functional theory (B3LYP, B3P86, and B3PW91) methods along with several basis sets. Natural bond orbital (NBO) analysis was also applied to investigate the origin of the rotational barrier.

scholarly journals The Interaction of Adenine with Zn12O12 Cluster from Density Functional Theory

2020 ◽  
Vol 36 (3) ◽  
Author(s):  
Nguyen Huu Tho ◽  
Nguyen Thanh Trung
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Energy Gap ◽  
Population Analysis ◽  
Basis Sets ◽  
Base Interaction ◽  
Functional Theory ◽  
Model Cluster ◽  
Dna Base ◽  
Energy Frontier

Geometries associated energy gap and electronic properties of adenine, DNA base interaction on the ZnO model cluster have been investigated by using density functional theory with the B3LYP exchange-correlation potential and effective core potential (ECP) LanL2DZ basis sets. The most stable interaction characteristics were analysed with respect to the binding energy, frontier orbital, elemental positions. Natural population analysis charge is also examined to understand the associated charge transfer in structures of cluster and complex. In the Zn-N bonding, combination coefficient from atom orbitals of nitrogen is much higher than that of zinc. The corresponding weight for this coefficient is 94.80%. The results of this study can serve as an orientation for the design of composite material in biomedical nanotechnology.

scholarly journals Electronic Spectra of ortho-Substituted Phenols: An Experimental and DFT Study

2018 ◽  
Vol 2018 ◽  
pp. 1-10 ◽  
Author(s):  
Samuel Tetteh ◽  
Ruphino Zugle ◽  
John Prosper Kwaku Adotey ◽  
Andrews Quashie
Keyword(s):  
Electronic Spectra ◽  
Density Functional ◽  
Population Analysis ◽  
Halogen Bonding ◽  
Substituted Phenols ◽  
Dft Methods ◽  
Functional Theory ◽  
Spectral Changes ◽  
Full Interaction ◽  
Interaction Map

The electronic spectra of phenol, 2-chlorophenol, 2-aminophenol, and 2-nitrophenol have been studied both experimentally and computationally. The effect of the substituents on the solvatochromic behavior of the phenols were investigated in polar protic (methanol) and aprotic (dimethyl sulfoxide (DMSO)) solvents. The spectra of 2-nitrophenol recorded the highest red shift in methanol. The observed spectral changes were investigated computationally by means of density functional theory (DFT) methods. The gas phase compounds were fully optimized using B3LYP functionals with 6-31++G(d,p) bases set. The effects of the substituents on the electron distribution in the σ-bonds as well as the natural charge on the constituent atoms were analyzed by natural bond orbital (NBO) and natural population analysis (NPA). Second-order perturbation analyses also revealed substantial delocalization of nonbonding electrons on the substituents onto the phenyl ring, thereby increasing its electron density. Full interaction map (FIM) also showed regions of varying propensities for hydrogen and halogen bonding interactions on the phenols.

Comparison of different theory models and basis sets for the calculation of FbC-M10Iso-Bn geometry and geometries of chlorin-imide and chlorin-isoimide isomeric pairs

2013 ◽  
Vol 17 (05) ◽  
pp. 376-383 ◽  
Author(s):  
Jong-Kil Park ◽  
Sang Joon Choe
Keyword(s):  
Density Functional ◽  
Molecular Geometry ◽  
Basis Sets ◽  
Normal Coordinate ◽  
Dft Methods ◽  
Functional Theory ◽  
X Ray ◽  
Bond Lengths ◽  
X Ray Crystallography ◽  
Isomeric Pairs

Various density functional theory (DFT) methods with different basis sets to predict the molecular geometry of FbC-M10Iso-Bn macrocycle, a chlorin-isoimide, are compared in this study. DFT methods, including M06-2X, B3LYP, LSDA, B3PW91, PBEPBE, and BPV86, are examined. Different basis sets, such as 6-31G*, 6-31+G (d, p), 6-311+G (d, p), 6-311++G (d, p), cc-PVDZ, cc-PVTZ, and cc-PVQZ are also considered. The examined hybrid DFT methods are in agreement with the geometry of X-ray crystallography available for comparison. B3LYP/cc-PVDZ level is particularly consistent with available X-ray crystallography in terms of predicting the geometries of FbC-M10Iso-Bn. Geometries of chlorin-imide and chlorin-isoimide isomeric pairs are described through B3LYP/cc-PVDZ method. The bond lengths of chlorin-isoimide, specifically C13–C14, C14–C15, and C2–C3, increase as bond overlap index decreases because of charge transfer. β-β bond lengths (C2–C3 bond lengths) with a three-substituent benzylcarbamoyl group also increase as bond overlap index decreases compared with other molecules. The bond lengths of chlorin-imide are smaller than those of chlorin-isoimide. Angles with β-β bond lengths, specifically C2–C3–C4 in ring A, also decrease with a three-substituent benzylcarbamoyl group; however, the angles in C1–C2–C3 increase. Potential energy on the surfaces of the chlorin-imide and chlorin-isoimide isomeric pairs is optimized by calculating the total and relative energies at B3LYP/cc-PVDZ level. Results indicate that chlorin-imides are more stable than chlorin-isoimides. Normal-coordinate structural decomposition shows that chlorin-imides exhibit greater deformation than chlorin-isoimides except for FbC-M10Iso-Ph.

Density functional theory study of the geometrical and electronic structures of GenV(0,±1)(n=1–9) clusters

2017 ◽  
Vol 31 (05) ◽  
pp. 1750022 ◽  
Author(s):  
Shun-Ping Shi ◽  
Yi-Liang Liu ◽  
Bang-Lin Deng ◽  
Chuan-Yu Zhang ◽  
Gang Jiang
Keyword(s):  
Density Functional Theory ◽  
Natural Population ◽  
Density Functional ◽  
Population Analysis ◽  
Basis Sets ◽  
Functional Theory ◽  
Natural Population Analysis ◽  
B3lyp Level ◽  
Calculation Results ◽  
Homo Lumo

Geometrical and electronic properties of Ge[Formula: see text]V[Formula: see text] clusters containing 1–9 Ge atoms and one V atom are calculated by using density functional theory (DFT) at the B3LYP level and the LanL2DZ basis sets. The growth pattern behavior, natural population analysis, relative stability, electronic property and magnetism of these clusters are discussed in detail. The calculation results of the geometrical show that the relative stable structures of Ge[Formula: see text]V[Formula: see text] clusters adopt 3D structures from [Formula: see text] to [Formula: see text]. The results of natural population analysis show that electrons transfer from the Ge atoms to the V atoms when [Formula: see text] while the electrons transfer from the V atoms to the Ge atoms when [Formula: see text]. The Ge[Formula: see text]V[Formula: see text] clusters possess higher stability and the GeV[Formula: see text], Ge3V[Formula: see text], Ge5V[Formula: see text], Ge7V[Formula: see text], and Ge9V[Formula: see text] have larger HOMO–LUMO gaps. Furthermore, the VIPs of Ge[Formula: see text]V clusters show a reverse trend in contrast to the AIPs.

Investigation of Adsorption Tyrphostin AG528 Anticancer Drug Upon the CNT(6,6-6) Nanotube: A DFT Study

2019 ◽  
Vol 19 (2) ◽  
pp. 91-104 ◽  
Author(s):  
Masoome Sheikhi ◽  
Siyamak Shahab ◽  
Radwan Alnajjar ◽  
Mahin Ahmadianarog ◽  
Sadegh Kaviani
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Nbo Analysis ◽  
Hydrogen Atoms ◽  
Functional Theory ◽  
Adsorption Effect ◽  
Chemical Shift Tensors ◽  
Solvent Water ◽  
Td Dft ◽  
The Stability

Objective: In the present study, the interaction between drug Tyrphostin AG528 and CNT(6,6-6) nanotube by Density Functional Theory (DFT) calculations in solvent water has been investigated for the first time. Methods and Results: According to the calculations, intermolecular hydrogen bonds take place between an active position of the molecule Tyrphostin AG528 and hydrogen atoms of the nanotube which play an important role in the stability of complex CNT(6,6- 6)/Tyrphostin AG528. The non-bonded interaction effects of the molecule Tyrphostin AG528 with CNT(6,6-6) nanotube on the electronic properties, chemical shift tensors and natural charge have also been detected. The natural bond orbital (NBO) analysis suggested that the molecule Tyrphostin AG528 as an electron donor and the CNT(6,6-6) nanotube play the role of an electron acceptor at the complex CNT(6,6-6)/Tyrphostin AG528. Conclusion: The electronic spectra of the Tyrphostin AG528 drug and complex CNT(6,6-6)/Tyrphostin AG528 in solvent water were calculated by Time-Dependent Density Functional Theory (TD-DFT) for the investigation of adsorption effect of the Tyrphostin AG528 drug over nanotube on maximum wavelength. Then, the possibility of the use of CNT(6,6-6) nanotube for Tyrphostin AG528 delivery to the diseased cells has been established.

Investigation of the Adsorption Rubraca Anticancer Drug on the CNT(4,4-8) Nanotube as a Factor of Drug Delivery: A Theoretical Study Based on DFT Method

2019 ◽  
Vol 19 (7) ◽  
pp. 473-486 ◽  
Author(s):  
Masoome Sheikhi ◽  
Siyamak Shahab ◽  
Mehrnoosh Khaleghian ◽  
Mahin Ahmadianarog ◽  
Fatemeh Azarakhshi ◽  
...  
Keyword(s):  
Density Functional Theory ◽  
Density Functional ◽  
Dft Method ◽  
Nbo Analysis ◽  
Hydrogen Atoms ◽  
Functional Theory ◽  
Adsorption Effect ◽  
Chemical Shift Tensors ◽  
Td Dft ◽  
The Stability

Background: In the present study, the interaction between new drug Rubraca and CNT(4,4-8) nanotube by Density Functional Theory (DFT) calculations in an aqueous medium for first time have been investigated. Method and Results: According to calculations, the intermolecular hydrogen bonds take place between active positions of the molecule Rubraca and hydrogen atoms of the nanotube that plays an important role in the stability of the complex CNT(4,4- 8)/Rubraca. The non-bonded interaction effects of the molecule Rubraca with CNT(4,4- 8) nanotube on the electronic properties, chemical shift tensors and natural charge have been also detected. The natural bond orbital (NBO) analysis suggested that the molecule Rubraca as an electron donor and the CNT(4,4-8) nanotube plays the role an electron acceptor at the complex CNT(4,4-8)/Rubraca. The electronic spectra of the Rubraca drug and the complex CNT(4,4-8)/Rubraca were also calculated by Time Dependent Density Functional Theory (TD-DFT) for the investigation of adsorption effect of the Rubraca drug over nanotube. Conclusion: The use of CNT(4,4-8) nanotube for Rubraca delivery to the diseased cells have been established.

A DFT INVESTIGATION ON BASIS SET SIZE AND HYDROGEN-BONDING EFFECTS ON 17O AND 2H NQR PARAMETERS

2013 ◽  
Vol 12 (04) ◽  
pp. 1350022 ◽  
Author(s):  
MEHDI D. ESRAFILI ◽  
NAFISEH MOHAMMADIRAD
Keyword(s):  
Density Functional ◽  
Quadrupole Coupling Constant ◽  
Basis Set ◽  
Basis Sets ◽  
Coupling Constant ◽  
Dft Methods ◽  
Functional Theory ◽  
Set Size ◽  
Quadrupole Coupling ◽  
Consistent Basis

A systematic theoretical study on various maleic acid (MA) clusters has been carried out employing density functional theory (DFT) methods. The performance of two different functionals namely B3LYP and M06 in the prediction of geometries, 17 O and 2 H nuclei quadrupole coupling constant (CQ) values of the MA clusters has been assessed comparing the results to those experimental data. For DFT calculations, several basis sets have been used, including the recently developed Jensen's polarization-consistent basis set families, pcJ-n and pcS-n (n = 0,1,2,3). Calculations at the basis set limit indicate that the value of CQ(2 H ) in monomer MA, changes by 0.01–0.04 kHz for each of the final two basis set increments, and seems reasonable to conclusion that the pcJ-3 result is within a few kHz of the basis set limit. Convergence with respect to basis set size was found to be very good, and the pcJ-1 and pcS-1 basis sets provided a good compromise between the basis set limit and computational expense. In most cases, the differences between B3LYP and M06 results for a given basis set are in a range of 1–2%. On the other hand, no systematic changes in the CQ(17 O ) or CQ(2 H ) were found for basis sets larger than double-ζ. Thus, the usual assumption that double-ζ basis set (pcJ-1 and pcS-1) results in the acceptable CQ values, seems to be valid in the case of 17 O and 2 H nuclei.

AB INITIO AND DFT STUDY OF NON-COVALENT INTERACTIONS BETWEEN RARE GAS ATOMS AND AROMATIC RINGS

2013 ◽  
Vol 12 (03) ◽  
pp. 1350012 ◽  
Author(s):  
CHENG CHENG ◽  
MIN ZHANG ◽  
LI SHENG
Keyword(s):  
Ab Initio ◽  
Weak Interaction ◽  
Density Functional ◽  
Nbo Analysis ◽  
Basis Sets ◽  
Rare Gas ◽  
Aromatic Rings ◽  
Functional Theory ◽  
Rare Gas Atoms ◽  
Non Covalent Interactions

In this paper, the weak interaction between aromatic rings (ARs) and rare gas (Rg) atoms has been studied using ab initio calculation and density functional theory (DFT). The augmented Dunning basis sets were used, and the convergence test was performed up to aug-cc-pV5Z. Among the computationally feasible methods, ωB97XD performed the best for these non-covalent systems. NBO analysis was performed to investigate the nature of the Rg/AR interactions. In this type of weak interaction, the induced and instantaneous dipole and charge transfer character both contribute to the interaction energies and equilibrium distances.

Molecular Structural and Vibrational Spectroscopic Assignments of n5-(4-Methoxyphenyl)-3-(1-methylindol-3-yl)-isoxazole using DFT Theory Calculations

2019 ◽  
Vol 4 (3) ◽  
pp. 147-151
Author(s):  
J. Jani Matilda ◽  
T.F. Abbs Fen Reji
Keyword(s):  
Molecular Orbital ◽  
Density Functional ◽  
Population Analysis ◽  
Nbo Analysis ◽  
Basis Set ◽  
Atomic Charges ◽  
Dft Methods ◽  
Mulliken Population ◽  
B3lyp Method ◽  
Experimental Values

In an effort to evaluate and design fast, accurate density functional theory (DFT) methods for 5-(4- methoxyphenyl)-3-(1-methylindol-3yl)isoxazole compound was done using Gaussion’ 09 program package using B3LYP method with the 6-31G basis set, which has been successfully applied in order to derive the optimized geometry, bonding features, harmonic vibrational wave numbers, NBO analysis and Mulliken population analysis on atomic charges in the ground state. Optimized geometries of the molecule have been described and collate with the experimental values. The experimental atomic charges demonstrates adequate concurrence with the theoretical prediction from DFT. The theoretical spectra values have been interpreted and compared with the FT-IR spectra. The calculated highest occupied molecular orbital (HOMO) and lowest unoccupied molecular orbital (LUMO) energy gaps also confirm that charge transfer takes place within the molecule.

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