scholarly journals A Careful Consideration of the Influence of Structure, Partial charges and Basis Sets on Collision Cross Sections of Monosaccharides when Comparing Values from DFT Calculated Conformers to those Obtained Experimentally

2017 ◽  
Author(s):  
Lukasz G. Migas ◽  
Christopher J. Gray ◽  
Sabine L. Flitsch ◽  
Perdita E. Barran
Keyword(s):  
Cross Sections ◽  
Molecular Conformation ◽  
Population Analysis ◽  
Careful Consideration ◽  
Basis Set ◽  
Basis Sets ◽  
Mulliken Charge ◽  
Hartree Fock ◽  
Partial Charges ◽  
Collision Cross Sections

AbstractMolecular modelling is routinely employed to assign 3D structures to collision cross sections (CCSs) derived from ion mobility mass spectrometry experiments (IM-MS). The assignment of model structures to the experimental CCSs remains an ambiguous task, where one of several methods may be used to obtain a CCS from a given set of coordinates. The most reliable of the commonly used techniques, the Trajectory Method, starts with atomic coordinates which can be accompanied by partial atomic charges, obtained using ab initio methods. Here, we use lithiated α- and β-glucose ions as exemplar molecules to detect the effect conformational modification and changes to the partial charge distribution have on computed collision cross sections. Six popular charge schemes (Mulliken, APT, CHelpG, MK, HLY and NPA) were examined in combination with three functionals (Hartree-Fock, B3LYP and M05) and five basis sets (STO-3G, 3-21G, 6-31G, 6-31+G and 6-31G*) on twenty unique structures. Our findings indicate that molecular conformation makes a significant contribution to fluctuations of partial charges in Electrostatic Potential (ESP) and Mulliken charge scheme; Partial charges derived using Natural Population Analysis (NPA) and ESP methods are largely independent of functional and basis set selection; and both selection of the charge scheme and functional/basis set combination play a large role in the resultant CCS, often causing few percent fluctuations in the computed values.

A GTO basis set calculation of properties of the continuum. Photoionization and resonances of He

1992 ◽  
Vol 70 (2) ◽  
pp. 513-519 ◽  
Author(s):  
Roberto Moccia ◽  
Pietro Spizzo
Keyword(s):  
Cross Section ◽  
Cross Sections ◽  
Photoionization Cross Section ◽  
Basis Set ◽  
Basis Sets ◽  
Gaussian Basis Sets ◽  
Continuum States ◽  
K Matrix ◽  
The Continuum ◽  
Autoionizing States

By using the K-matrix technique for the continuum states that was previously employed with particularly diffuse L2 basis sets, it is shown that GTO bases are also capable of yielding accurate values for the properties belonging to the electronic continuum. The method has been tested for helium and proved of satisfactory accuracy also for the analysis of the autoionizing states. The results include the phase shifts of the continuum states of the 1Seand 1P° manifolds, the properties of the lowest resonances of these symmetries, the ground state photoionization cross section, and the S contribution to the 1s2p1P° photoionization cross section. The results obtained suggest that the proposed technique should be useful for computing molecular differential photoionization cross sections by exploiting the widely used codes that employ GTO bases. Keywords: photoionization, Gaussian basis sets, helium, autoionizing states.

Intermolecular Effects on Third Order Nonlinear Optical Properties

1992 ◽  
Vol 247 ◽  
Author(s):  
D. S. Dudis ◽  
A. T. Yeates ◽  
H. A. Kurtz
Keyword(s):  
Optical Properties ◽  
Intermolecular Interactions ◽  
Nonlinear Optical ◽  
Basis Set ◽  
Basis Sets ◽  
Intermolecular Potential ◽  
Correlation Effects ◽  
Third Order ◽  
Hartree Fock ◽  
Intermolecular Contacts

ABSTRACTHartree-Fock ab initio calculations have been used to examine the magnitude of non-polar intermolecular interactions on polarizabilities and second hyperpolarizabilities. In the present case two ethylene molecules were examined in a cofacial interaction. Basis set requirements and correlation effects were considered in deriving the intermolecular potential. Two basis sets were considered for the intermolecular interactions at the Hartree-Fock level, while one set of calculations was performed with corrections for correlation. It is found that intermolecular contacts at the van der Waals distance has little effect on the molecular second hyperpolarizability, but it is not clear what the effect would be for longer oligomers.

scholarly journals A Statistically Supported Antioxidant Activity DFT Benchmark—The Effects of Hartree–Fock Exchange and Basis Set Selection on Accuracy and Resources Uptake

Molecules ◽  
2021 ◽  
Vol 26 (16) ◽  
pp. 5058
Author(s):  
Maciej Spiegel ◽  
Andrzej Gamian ◽  
Zbigniew Sroka
Keyword(s):  
Density Functional ◽  
Optimal Level ◽  
Basis Set ◽  
Basis Sets ◽  
Linear Regression Models ◽  
Functional Theory ◽  
Hartree Fock ◽  
Diffuse Function ◽  
Vertical Electron Affinity ◽  
High Level

Polyphenolic compounds are now widely studied using computational chemistry approaches, the most popular of which is Density Functional Theory. To ease this process, it is critical to identify the optimal level of theory in terms of both accuracy and resource usage—a challenge we tackle in this study. Eleven DFT functionals with varied Hartree–Fock exchange values, both global and range-separated hybrids, were combined with 14 differently augmented basis sets to calculate the reactivity indices of caffeic acid, a phenolic acid representative, and compare them to experimental data or a high-level of theory outcome. Aside from the main course, a validation of the widely used Janak’s theorem in the establishment of vertical ionization potential and vertical electron affinity was evaluated. To investigate what influences the values of the properties under consideration, linear regression models were developed and thoroughly discussed. The results were utilized to compute the scores, which let us determine the best and worst combinations and make broad suggestions on the final option. The study demonstrates that M06–2X/6–311G(d,p) is the best fit for such research, and, curiously, it is not necessarily essential to include a diffuse function to produce satisfactory results.

Effect of Basis Sets on the Selection of the Level of Theory Toward the Development of Quantum-Based Force Field Equation for Ionic Liquids

2005 ◽  
Vol 5 (2) ◽  
pp. 156 ◽  
Author(s):  
A. N. Soriano ◽  
B. T. Doma, Jr.
Keyword(s):  
Ionic Liquids ◽  
Field Equation ◽  
Volatile Organic Compounds ◽  
Force Field ◽  
Organic Compounds ◽  
Basis Set ◽  
Basis Sets ◽  
Hartree Fock ◽  
Volatile Organic ◽  
Selection Of

The chemical industry is under considerable pressure to replace many of the volatile organic compounds. Volatile organic compounds are a major contributor to air pollution, but out of necessity, they are still frequently used in many chemical and industrial processes. A new class of solvents, referred to as ionic liquids, may offer at least a partial solution to the pollution problem caused by volatile organic compounds. Ionic liquids are generally considered "green" solvents because of their environment-friendly properties. However, the main problem that hinders the chemical industry from using ionic liquids is that, compared to conventional organic solvents, relatively little is known about their thermodynamic and transport properties. Since there are large possible combinations of ionic liquids, it would be very expensive if the study were conducted in the laboratory. The more appropriate approach in studying the properties of ionic liquids is to engage in a computational method, which uses a computer software that evaluates ionic liquids' thermophysical quantities via quantum mechanical and molecular mechanical simulations. In this study, a computer simulation, with the aid of SPARTAN '02 software, is used to study the effect of basis sets on the selection of the appropriate level of theory, which would be employed later in developing a quantum-based force field equation for predicting the properties of ionic liquids. Using the Hartree-Fock self-consistent filled (HF-SCF) molecular orbital model with different basis sets, a single point energy calculations were carried out for the chosen ionic liquid. With the exception of the minimal basis set, the SCF total energies for the other basis sets agree with each other in terms of magnitude. The SCF total energy is not affected as the basis set varies from minimal to split valence and as it polarizes. The most appropriate basis set was found to be 6-31G*. Keywords: Basis sets, Hartree-Fock, ionic liquids, force field equation, level of theory, and SPARTAN '02.

The simplified ab initio method calculation of linear polarizability

1973 ◽  
Vol 26 (5) ◽  
pp. 921 ◽  
Author(s):  
RD Brown ◽  
GR Williams
Keyword(s):  
Ab Initio ◽  
Small Molecules ◽  
Basis Set ◽  
Basis Sets ◽  
Orbital Method ◽  
Polarizability Anisotropy ◽  
Minimal Basis ◽  
Hartree Fock ◽  
Numerical Performance ◽  
Experimental Values

The simplified ab-initio molecular-orbital method described previously is particularly suited to the calculation of polarizabilities by the non-perturbative coupled Hartree-Fock technique. Trial calculations on CO and HF, for which comparison with corresponding ab-initio calculations is possible, show that the method gives an adequate numerical performance. Minimal basis set calculations in general tend to give values that are considerably too low because of inadequate flexibility of the basis and this is the origin of the large discrepancy between theory and experiment, especially for small molecules. ��� Results are also reported for N2O and O3. For these larger systems the SAI results with minimal basis sets are noticeably nearer experimental values. The polarizability anisotropy for N2O is particularly well reproduced by the SAI method. �

scholarly journals Quantum Mechanical Study of YTiO3 to the Investigation of Piezoelectricity

2011 ◽  
Vol 2011 ◽  
pp. 1-5
Author(s):  
Raimundo Dirceu de Paula Ferreira ◽  
Marcos Antonio Barros dos Santos ◽  
Maycon da Silva Lobato ◽  
Jardel Pinto Barbosa ◽  
Marcio de Souza Farias ◽  
...  
Keyword(s):  
Total Energy ◽  
Piezoelectric Properties ◽  
Piezoelectric Effect ◽  
Basis Set ◽  
Basis Sets ◽  
Gaussian Basis Sets ◽  
Hartree Fock ◽  
Generator Coordinate ◽  
Mechanical Study ◽  
Quantum Mechanical Study

In previous articles we reported through theoretical studies the piezoelectric effect in BaTiO3, SmTiO3, and YFeO3. In this paper, we used the Douglas-Kroll-Hess (DKH) second-order scalar relativistic method to investigate the piezoelectricity in YTiO3. In the calculations we used the [6s4p] and [10s5p4d] Gaussian basis sets for the O (3P) and Ti (5S) atoms, respectively, from the literature in combination with the (30s21p16d)/[15s9p6d] basis set for the Y (3D) atom, obtained by generator coordinate Hartree-Fock (GCHF) method, and they had their quality evaluated using calculations of total energy and orbital energies (HOMO and HOMO-1) of the 2TiO+1 and 1YO+1 fragments. The dipole moment, the total energy, and the total atomic charges in YTiO3 in Cs space group were calculated. When we analyze those properties we verify that it is reasonable to believe that YTiO3 does not present piezoelectric properties.

COMPUTATION OF LARGE SYSTEMS WITH AN ECONOMIC BASIS SET: AB INITIO CALCULATIONS OF BIOLOGICAL NUCLEIC ACID BASE PAIRS

2006 ◽  
Vol 05 (spec01) ◽  
pp. 411-420 ◽  
Author(s):  
WENJIE FAN ◽  
RUIQIN ZHANG
Keyword(s):  
Nucleic Acid ◽  
Single Point ◽  
Basis Set ◽  
Basis Sets ◽  
Mulliken Charge ◽  
Acid Base ◽  
Base Pairs ◽  
Point Energy ◽  
Economic Basis ◽  
Nucleic Acid Base

We show that an economic basis set, in which the polarization functions are considered only for oxygen and nitrogen atoms of strong electronegativity, can be used to determine reliable structures of nucleic acid base pairs. Mulliken charge analysis and the HOMO-LUMO gap in single-point energy calculations using standard basis sets on the geometric structures optimized with the economic basis set found reasonable agreements with the ones of standard calculations. This study is expected to provide a general guideline for basis set selection in the computation of large biological systems being performed with considerable high accuracy, using a low cost computation resource.

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