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Journal ArticleDOI

Chiral transformation in protonated and deprotonated adipic acids through multistep internal proton transfer.

TLDR
Several prominent OH...O short hydrogen-bond stretching peaks are predicted in the range of 1000-1700 cm(-1) in the Car-Parrinello molecular dynamics (CPMD) simulations, which show distinctive signatures different from ordinary hydrogen- bond peaks.
Abstract
Protonated and deprotonated adipic acids (PAA: HOOC-(CH(2))(4)--COOH(2) (+) and DAA: HOOC-(CH(2))(4)-COO(-)) have a charged hydrogen bond under the influence of steric constraint due to the molecular skeleton of a circular ring. Despite the similarity between PAA and DAA, it is surprising that the lowest energy structure of PAA is predicted to have (H(2)O...H...OH(2))(+) Zundel-like symmetric hydrogen bonding, whereas that of DAA has H(3)O(+) Eigen-like asymmetric hydrogen bonding. The energy profiles show that direct proton transfer between mirror image structures is unfavorable. Instead, the chiral transformation is possible by subsequent backbone twistings through stepwise proton transfer along multistep intermediate structures, which are Zundel-like ions for PAA and Eigen-like ions for DAA. This type of chiral transformation by multistep intramolecular proton transfers is unprecedented. Several prominent OH...O short hydrogen-bond stretching peaks are predicted in the range of 1000-1700 cm(-1) in the Car-Parrinello molecular dynamics (CPMD) simulations, which show distinctive signatures different from ordinary hydrogen-bond peaks. The O-H-O stretching peaks in the range of 1800-2700 cm(-1) become insignificant above around 150 K and are almost washed out at about 300 K.

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Citations
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Dynamics and Infrared Spectroscopy of the Protonated Water Dimer

TL;DR: The spectral signatures in terms of the underlying couplings and dynamics of the different degrees of freedom are discussed and predictions are made for the lowest-frequency part of the spectrum, which has not yet experimentally been accessed.
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Intermetallic Competition in the Fragmentation of Trimetallic Au–Zn–Alkali Complexes

TL;DR: This study cationize a bimetallic complex with alkali metal ions and investigate the charged adducts by electrospray ionization mass spectrometry (ESI-MS) and reveals a μ(3) binding motif of all alkali ions to the three chlorido ligands.
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Protein removal agent

TL;DR: In this article, the authors present compositions, methods and kits for the removal of proteins from complex reaction mixtures useful in majority workflows of molecular biology research experiments, such as purification of nucleic acids from biological samples or after their treatment with specific enzymes, when residual enzyme activity in reaction mixture is not compatible with downstream applications.
References
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A unified formulation of the constant temperature molecular dynamics methods

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Journal ArticleDOI

Efficient pseudopotentials for plane-wave calculations

TL;DR: It is found that these pseudopotentials are extremely efficient for the cases where the plane-wave expansion has a slow convergence, in particular, for systems containing first-row elements, transition metals, and rare-earth elements.
Journal ArticleDOI

Basis-set convergence of correlated calculations on water

TL;DR: In this paper, the basis-set convergence of the electronic correlation energy in the water molecule is investigated at the second-order Mo/ller-Plesset level and at the coupled-cluster singles-and-doubles level with and without perturbative triples corrections applied.
Journal ArticleDOI

Proton Transfer, Acid‐Base Catalysis, and Enzymatic Hydrolysis. Part I: ELEMENTARY PROCESSES

TL;DR: In this paper, the authors present a relatively complete picture of the elementary proton transfer mechanisms and a comprehensive description of the modes and laws of acid-base and enzymatic catalysis.
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