Solvation model induced structural changes in peptides. A quantum chemical study on Ramachandran surfaces and conformers of alanine diamide using the polarizable continuum model

2004 ◽  
Vol 25 (12) ◽  
pp. 1522-1531 ◽  
Author(s):  
Ilona Hudáky ◽  
Péter Hudáky ◽  
András Perczel
Keyword(s):  
Quantum Chemical ◽  
Continuum Model ◽  
Structural Changes ◽  
Quantum Chemical Study ◽  
Chemical Study ◽  
Polarizable Continuum Model ◽  
Solvation Model ◽  
Polarizable Continuum

scholarly journals QUANTUM-CHEMICAL STUDY OF THE MECHANISM OF REACTION OF BENZOELACETHYLENE WITH DITIO- AND DISELENOMALONAMIDES

2020 ◽  
Vol 2020 (1) ◽  
pp. 127-135
Author(s):  
Elena Chirkina
Keyword(s):  
Quantum Chemical ◽  
Density Functional ◽  
Quantum Chemical Study ◽  
Chemical Study ◽  
Polarizable Continuum Model ◽  
Basis Set ◽  
Mechanism Of Reaction ◽  
The Density Functional Theory ◽  
Two Stages ◽  
Polarizable Continuum

A mechanism of the interaction of benzoylacetylene with dithio- and diselenomalonamides has been proposed on the basis of quantum-chemical calculations in the framework of the density functional theory using the B3LYP/6-311++G(d,p) basis set taking into account solvent effects (AcOH) within the polarizable continuum model, PCM, with inclusion of the HCl molecule in the calculated space. It is shown that the reaction involves two stages to afford heterocyclic compounds of the dithiine and diselenine type

scholarly journals Н-комплексы 1,2-нафтохинона с молекулами воды в водном растворе и их влияние на сдвиги полос поглощения

2021 ◽  
Vol 129 (5) ◽  
pp. 599
Author(s):  
С.Н. Цеплина ◽  
E.E. Цеплин
Keyword(s):  
Quantum Chemical ◽  
Continuum Model ◽  
Density Functional ◽  
Water Solution ◽  
Polarizable Continuum Model ◽  
Water Molecules ◽  
Absorption Bands ◽  
Functional Theory ◽  
Polarizable Continuum ◽  
Polar Water

Optical absorption spectra of 1,2-naphthoquinone in non-polar (n-hexane) and polar (water) solvents were obtained. It is shown that the use of quantum chemical calculations based on time-dependent density functional theory (TDDFT B3LYP/6-311+G(d, p)) with the polarizable continuum model (PCM) for calculating 1,2-naphthoquinone in a solution of n-hexane and hydrogen complex of 1,2-naphthoquinone with two water molecules in an aqueous medium describes well the shifts of the absorption bands of 1,2-naphthoquinone in a water solution compared to a solution in n-hexane. Based on the analysis of deviations of the calculated band shifts from the experimental ones, the question of the formation of 1,2-naphthoquinone hydrogen complexes with n water molecules (n = 1-4) in an aqueous solution is considered.

Assessing the hydration free energy of a homologous series of polyols with classical and quantum mechanical solvation models

2014 ◽  
Vol 16 (33) ◽  
pp. 17863-17868 ◽  
Author(s):  
Thaciana Malaspina ◽  
Leonardo M. Abreu ◽  
Tertius L. Fonseca ◽  
Eudes Fileti
Keyword(s):  
Molecular Dynamics ◽  
Free Energy ◽  
Homologous Series ◽  
Continuum Model ◽  
Polarizable Continuum Model ◽  
Quantum Mechanical ◽  
Hydration Free Energy ◽  
Solvation Model ◽  
Solvation Models ◽  
Polarizable Continuum

Molecular dynamics (MD) and the polarizable continuum model (PCM) in combination with the SMD solvation model were used to study the hydration free energy of the homologous series of polyols, CnHn+2(OH)n (1 ≤ n ≤ 7).

A simple heuristic approach to estimate the thermochemistry of condensed-phase molecules based on the polarizable continuum model

2019 ◽  
Vol 21 (35) ◽  
pp. 18920-18929 ◽  
Author(s):  
Yu-ichiro Izato ◽  
Akira Matsugi ◽  
Mitsuo Koshi ◽  
Atsumi Miyake
Keyword(s):  
Liquid Phase ◽  
Simple Model ◽  
Condensed Phase ◽  
Quantum Chemical ◽  
Continuum Model ◽  
Polarizable Continuum Model ◽  
Heuristic Approach ◽  
Continuum Models ◽  
Quantum Chemical Approach ◽  
Polarizable Continuum

A simple model based on a quantum chemical approach with polarizable continuum models (PCMs) to provide reasonable translational and rotational entropies for liquid phase molecules was developed.

Rydberg transitions as a probe for structural changes and phase transition at polymer surfaces: an ATR-FUV-DUV and quantum chemical study of poly(3-hydroxybutyrate) and its nanocomposite with graphene

2018 ◽  
Vol 20 (13) ◽  
pp. 8859-8873 ◽  
Author(s):  
Krzysztof B. Beć ◽  
Yusuke Morisawa ◽  
Kenta Kobashi ◽  
Justyna Grabska ◽  
Ichiro Tanabe ◽  
...  
Keyword(s):  
Phase Transition ◽  
Quantum Chemical ◽  
Structural Changes ◽  
Quantum Chemical Study ◽  
Chemical Study ◽  
Polymer Surfaces ◽  
Quantum Mechanical ◽  
Quantum Mechanical Calculations ◽  
Rydberg Transitions

ATR-FUV-DUV (145–300 nm; 8.55–4.13 eV) and quantum mechanical calculations study of PHB and its nanocomposite with graphene.

THEORETICAL STUDY ON HYDROLYSIS MECHANISM OF β-PHOSPHOLACTAMS

2006 ◽  
Vol 05 (spec01) ◽  
pp. 421-431 ◽  
Author(s):  
LINGJUAN YU ◽  
DACHENG FENG ◽  
MAOXIA HE ◽  
RUI LI ◽  
ZHENGTING CAI
Keyword(s):  
Quantum Chemical ◽  
Continuum Model ◽  
Chemical Method ◽  
Theoretical Study ◽  
Polarizable Continuum Model ◽  
Energy Barriers ◽  
Stepwise Mechanism ◽  
Hydrolysis Mechanism ◽  
Polarizable Continuum ◽  
Hydrolysis Of

The neutral hydrolysis mechanisms of a simple β-phospholactam with and without water-assisted reaction have been studied by using quantum chemical method at HF/6-31G**, MP2/6-31G** and B3LYP/6-31G** levels, respectively. The reaction can proceed by two different mechanisms: concerted and stepwise. There are two pathways in stepwise, i.e. pathway a and b, and the energy barriers of them are close. The energy barriers of water-assisted hydrolysis of β-phospholactam are obviously lower than those of no-water-assisted hydrolysis system. The energy barriers of stepwise mechanism are much lower than those of the concerted pathway in both cases. The solvent effects have been considered by means of a polarizable continuum model. The hydrolysis mechanism of β-phospholactam with that of the β-lactam and β-sultam was compared.

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