An accurate density functional theory based estimation of pKa values of polar residues combined with experimental data: from amino acids to minimal proteins

2012 ◽  
Vol 14 (12) ◽  
pp. 4181 ◽  
Author(s):  
Toru Matsui ◽  
Takeshi Baba ◽  
Katsumasa Kamiya ◽  
Yasuteru Shigeta
Keyword(s):  
Experimental Data ◽  
Amino Acids ◽  
Density Functional Theory ◽  
Density Functional ◽  
Functional Theory ◽  
Pka Values ◽  
Polar Residues

Theoretical determination of the structures of CaSiO3 perovskites

2006 ◽  
Vol 62 (6) ◽  
pp. 1025-1030 ◽  
Author(s):  
Razvan Caracas ◽  
Renata M. Wentzcovitch
Keyword(s):  
Crystal Structure ◽  
Experimental Data ◽  
Density Functional Theory ◽  
Density Functional ◽  
Theoretical Determination ◽  
Functional Theory ◽  
Starting Point ◽  
Atomic Coordinates ◽  
The Ideal

Density functional theory is used to determine the possible crystal structure of the CaSiO3 perovskites and their evolution under pressure. The ideal cubic perovskite is considered as a starting point for studying several possible lower-symmetry distorted structures. The theoretical lattice parameters and the atomic coordinates for all the structures are determined, and the results are discussed with respect to experimental data.

scholarly journals Charge radii of potassium isotopes in the RMF(BCS)* approach

2022 ◽  
Author(s):  
Rong An ◽  
Shisheng Zhang ◽  
Li-Sheng Geng ◽  
Feng-Shou 张丰收 Zhang
Keyword(s):  
Experimental Data ◽  
Density Functional Theory ◽  
Density Functional ◽  
Mean Field ◽  
Field Studies ◽  
Nuclear Density ◽  
Isotopic Chain ◽  
Functional Theory ◽  
Charge Radii ◽  
Nuclear Density Functional Theory

Abstract We apply the recently proposed RMF(BCS)* ansatz to study the charge radii of the potassium isotopic chain up to $^{52}$K. It is shown that the experimental data can be reproduced rather well, qualitatively similar to the Fayans nuclear density functional theory, but with a slightly better description of the odd-even staggerings (OES). Nonetheless, both methods fail for $^{50}$K and to a lesser extent for $^{48,52}$K. It is shown that if these nuclei are deformed with a $\beta_{20}\approx-0.2$, then one can obtain results consistent with experiments for both charge radii and spin-parities. We argue that beyond mean field studies are needed to properly describe the charge radii of these three nuclei, particularly for $^{50}$K.

scholarly journals Thermodynamics of Uranium Tri-Iodide from Density-Functional Theory

2020 ◽  
Vol 10 (11) ◽  
pp. 3914
Author(s):  
Per Söderlind ◽  
Aurélien Perron ◽  
Emily E. Moore ◽  
Alexander Landa ◽  
Tae Wook Heo
Keyword(s):  
Experimental Data ◽  
Density Functional Theory ◽  
Heat Capacity ◽  
Density Functional ◽  
Thermodynamic Assessment ◽  
Harmonic Approximation ◽  
Metallic System ◽  
Generalized Gradient ◽  
Functional Theory ◽  
Generalized Gradient Approximation

Density-functional theory (DFT) is employed to investigate the thermodynamic and ground-state properties of bulk uranium tri-iodide, UI3. The theory is fully relativistic and electron correlations, beyond the DFT and generalized gradient approximation, are addressed with orbital polarization. The electronic structure indicates anti-ferromagnetism, in agreement with neutron diffraction, with band gaps and a non-metallic system. Furthermore, the formation energy, atomic volume, crystal structure, and heat capacity are calculated in reasonable agreement with experiments, whereas for the elastic constants experimental data are unavailable for comparison. The thermodynamical properties are modeled within a quasi-harmonic approximation and the heat capacity and Gibbs free energy as functions of temperature agree with available calculation of phase diagram (CALPHAD) thermodynamic assessment of the experimental data.

scholarly journals Predicting Core Level Photoelectron Spectra of Amino Acids Using Density Functional Theory

2020 ◽  
Vol 11 (6) ◽  
pp. 2256-2262
Author(s):  
Jo M. Pi ◽  
Martina Stella ◽  
Nathalie K. Fernando ◽  
Aaron Y. Lam ◽  
Anna Regoutz ◽  
...  
Keyword(s):  
Amino Acids ◽  
Density Functional Theory ◽  
Density Functional ◽  
Core Level ◽  
Photoelectron Spectra ◽  
Functional Theory

Adsorption characteristics of amino acids on graphene and germanene using dispersion-corrected density functional theory

2021 ◽  
Vol 127 ◽  
pp. 114498
Author(s):  
Azadeh Ayatollahi ◽  
Mahmood Rezaee Roknabadi ◽  
Mohammad Behdani ◽  
Nasser Shahtahmassebi ◽  
Biplab Sanyal
Keyword(s):  
Amino Acids ◽  
Density Functional Theory ◽  
Density Functional ◽  
Functional Theory ◽  
Adsorption Characteristics

Experimental and Theoretical Study of the First Vanadocene(IV) Complexes of α-Amino Acids Prepared from Vanadocene Dichloride

2004 ◽  
Vol 69 (4) ◽  
pp. 811-821 ◽  
Author(s):  
Jaromír Vinklárek ◽  
Hana Paláčková ◽  
Jan Honzíček
Keyword(s):  
Amino Acids ◽  
Density Functional Theory ◽  
Density Functional ◽  
Theoretical Study ◽  
Model Systems ◽  
Amino Groups ◽  
Aqueous Methanol ◽  
Functional Theory ◽  
Elemental Analyses ◽  
Vanadocene Dichloride

The first bioinorganic vanadocene(IV) complexes of α-amino acids ([Cp2V(aa)]Cl, Cp = η5-C5H5, aa = glycine, L-alanine, L-valine) were prepared by reaction of vanadocene dichloride ([Cp2VCl2]) and α-amino acids in aqueous methanol. Analogous cationic complexes with PF6- counterions were obtained by metathetical reactions of the chloride precursors with KPF6. These compounds are of great interest as model systems for the vanadocene moiety binding to proteins. All complexes have been characterized by elemental analyses and IR, Raman and EPR spectroscopies. On the basis of EPR spectra, a chelate in all the studied complexes was proposed, formed by the carboxylato and amino groups. This structure has also been confirmed by density functional theory (DFT) calculations.

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