scholarly journals Electronic structure, stability, and cooperativity of chalcogen bonding in sulfur dioxide and hydrated sulfur dioxide clusters: a DFT study and wave functional analysis

Author(s):  
Venkataramanan Natarajan Sathiyamoorthy

Abstract Density functional theory calculations and wave functional analysis are used to examine the (SO2)n and (SO2)n–H2O clusters with n = 1–7. The nature of interactions is explored by molecular electrostatic potentials, electron density distribution, atoms in molecules, noncovalent interaction, and energy decomposition analysis. The putative global minimum of SO2 molecules has a 3D growth pattern with tetrahedral. In the hydrated SO2 clusters, the pure hydrogen bond isomers are less stable than the O···S chalcogen bond isomers. The cluster absorption energy of SO2 on water increases with the size of sulfur dioxide, implying reactivity of sulfur dioxide with water increases with size. The presence of cooperativity was evident from the excellent linearity plot of binding energy/polarizability vs the number of SO2 molecules. Molecular electrostatic potential analysis elucidates the reason for the facile formation of S···O chalcogen than hydrogen bonding in hydrated sulfur dioxide. Atoms in molecule analysis characterize the bonds chalcogen and H bonds to be weak and electrostatic dominant. EDA analysis shows electrostatic interaction is dominated in complexes with more intermolecular chalcogen bonding and orbital interaction for systems with intermolecular H-bonding. The reduced density gradient (RDG) analysis of sulfur dioxide clusters has blue patches and green patches due to S···O chalcogen bonding O···O electrostatic interaction. The RDG analysis of hydrated sulfur dioxide clusters shows intensive blue patches and green patches for the existence of S···O chalcogen and hydrogen bonding respectively. Thus, the presence of strong electrostatic S···O chalcogen interaction and weak H bonds acts cooperatively and stabilize the hydrated sulfur dioxide clusters.

2015 ◽  
Vol 17 (46) ◽  
pp. 30978-30982 ◽  
Author(s):  
Anne Knorr ◽  
Koichi Fumino ◽  
Anne-Marie Bonsa ◽  
Ralf Ludwig

Spectroscopic evidence for cation–cation interaction in ionic liquids. The repulsive electrostatic interaction is overcome by hydrogen bonding between ions of like charge.


2001 ◽  
Vol 68 ◽  
pp. 95-110 ◽  
Author(s):  
Andrew J. Doig ◽  
Charles D. Andrew ◽  
Duncan A. E. Cochran ◽  
Eleri Hughes ◽  
Simon Penel ◽  
...  

Pauling first described the α-helix nearly 50 years ago, yet new features of its structure continue to be discovered, using peptide model systems, site-directed mutagenesis, advances in theory, the expansion of the Protein Data Bank and new experimental techniques. Helical peptides in solution form a vast number of structures, including fully helical, fully coiled and partly helical. To interpret peptide results quantitatively it is essential to use a helix/coil model that includes the stabilities of all these conformations. Our models now include terms for helix interiors, capping, side-chain interactions, N-termini and 310-helices. The first three amino acids in a helix (N1, N2 and N3) and the preceding N-cap are unique, as their amide NH groups do not participate in backbone hydrogen bonding. We surveyed their structures in proteins and measured their amino acid preferences. The results are predominantly rationalized by hydrogen bonding to the free NH groups. Stabilizing side-chain-side-chain energies, including hydrophobic interactions, hydrogen bonding and polar/non-polar interactions, were measured accurately in helical peptides. Helices in proteins show a preference for having approximately an integral number of turns so that their N- and C-caps lie on the same side. There are also strong periodic trends in the likelihood of terminating a helix with a Schellman or αL C-cap motif. The kinetics of α-helix folding have been studied with stopped-flow deep ultraviolet circular dichroism using synchrotron radiation as the light source; this gives a far superior signal-to-noise ratio than a conventional instrument. We find that poly(Glu), poly(Lys) and alanine-based peptides fold in milliseconds, with longer peptides showing a transient overshoot in helix content.


2016 ◽  
Vol 8 (2) ◽  
pp. 453-459 ◽  
Author(s):  
Hong Zhi Zhang ◽  
Rong Sheng Li ◽  
Ni Wang ◽  
Li Qi ◽  
Cheng Zhi Huang ◽  
...  

The fluorescence quenching of CdTe QDs could be induced by heparin sodium via hydrogen bonding, which was then recovered by lysine through a strong electrostatic interaction.


2009 ◽  
Vol 87 (7) ◽  
pp. 1039-1054 ◽  
Author(s):  
Monika Srebro ◽  
Mariusz Mitoraj ◽  
Artur Michalak

The binding mode of polar monomers in complexes with late-transition-metal catalysts for ethylene polymerization was studied by density functional theory (DFT) calculations. The Ziegler–Rauk energy decomposition scheme was used to characterize the geometry distortion and steric and orbital-interaction terms in the bonding energy, while Natural Orbitals for Chemical Valence (NOCV) were applied to describe the donation and back-bonding components of the bond between the monomer and the catalyst. The NOCV analysis allowed for comparison of the donor–acceptor properties of different monomers in the σ- and π-complexes. The complexes with the model, cationic Ni– or Pd–diimine catalysts, N^N–Ni(H)+ and N^N–Pd(H)+, and the neutral Ni–anilinotropone system, N^O–Ni(H), were investigated. The monomers studied included: simple olefins (Et and Pr); examples of oxygen- and nitrogen-containing polar monomers (methyl acrylate (MA), vinyl acetate (VAc), their fluorinated derivatives (FMA, FVAc), vinyl ether (VE), acrylonitrile (AN), and β-butenoic nitrile (BN); vinyl and allyl amines (VAm, PrAm); and a tertiary dimethyl vinyl amine (MVAm). The results demonstrate that the metal-based fragment has a significant influence on the relative stability of the σ- and π-complexes; the π-binding mode increases in the following order: N^N–Ni(H)+ < N^N–Pd(H)+ < N^O–Ni(H). The results of the Ziegler–Rauk bond-energy decomposition indicate that for some monomers (MA, FMA, VAc, AN, VAm, MVAm) the preference of the coordination mode has a steric (electrostatic and Pauli) origin. For other monomers (VE, FVAc, BN, PrAm) the changes in the orbital-interaction terms are important as well. The results of the NOCV analysis indicate that for both, σ- and π-coordination modes there exist components describing σ-donation and π-back-bonding. The sequences of σ-donor and π-acceptor properties of monomers in the π-complexes as well as σ-complexes are similar for the considered catalysts.


2020 ◽  
Vol 73 (3) ◽  
pp. 222
Author(s):  
Frederick Backler ◽  
Feng Wang

Intramolecular hydrogen bonding of 2-methoxyphenol (2-MP, guaiacol) is studied using NMR spectroscopy combined with quantum mechanical density functional theory (DFT) calculations. The hydrogen bonding of OH⋯O and HO⋯H is switched on in the conformers of anti–syn (AS, 99.64% dominance) and anti–gauche (AG), respectively, with respect to the anti–anti (AA) conformer (without either such hydrogen bonding interactions). It confirms that the 13C and 1H NMR chemical shift of AS dominates the measured NMR spectra, as the AS conformer reproduces the measurements in CDCl3 solvent (RMSD of 1.86ppm for 13C NMR and of 0.27ppm for 1H NMR). The chemical shift of hydroxyl H(1) at 5.66 pm is identified as the fingerprint of the OH(1)⋯OCH3 hydrogen bonding in AS, as it exhibits a significant deshielding from H(1) of AA (4.24ppm) and H(1) of AG (4.38ppm) without such OH(1)⋯OCH3 hydrogen bonding. The AG conformer (C1 point group symmetry) possesses a less strong hydrogen bonding of HO⋯HCH2O, with the methoxyl group out of the aromatic phenol plane. The substituent effect of AG due to the resonance interaction of methoxyl being out of plane in a concentrated solution shifts the ortho- and para-aromatic carbons, C(3)/C(5), of the AG to ~125.05/125.44ppm from the corresponding carbons in AS at 108.81/121.60ppm. The hydrogen bonding exhibits inwards reduction of IR frequency regions of AS and AG from AA. Finally, energy decomposition analysis (EDA) indicates that there is a steric energy of 45.01kcal mol−1 between the AS and AG when different intramolecular hydrogen bonding is switched on.


Langmuir ◽  
2004 ◽  
Vol 20 (26) ◽  
pp. 11828-11832 ◽  
Author(s):  
Shilong Bai ◽  
Zhiqiang Wang ◽  
Xi Zhang ◽  
Bin Wang

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