Theoretical Study on the GeH4•••Y (Y=He, Ne, Ar and Kr) Systems

2012 ◽  
Vol 251 ◽  
pp. 346-350
Author(s):  
Kun Yuan ◽  
Ling Ling Lv ◽  
Yuan Cheng Zhu
Keyword(s):  
Hydrogen Bond ◽  
Theoretical Study ◽  
Natural Bond Orbital ◽  
Blue Shift ◽  
Basis Set ◽  
Interaction Energies ◽  
Weak Hydrogen Bond ◽  
Orbital Theory ◽  
Electrostatic Property ◽  
Bsse Correction

MP2/aug-cc-pvtz level was used to optimize geometries of the complexes between GeH4 and Y(Y=He, Ne, Ar and Kr). The structures and electronic properties of the blue-shift hydrogen bonds complexes GeH4…Y(Y=Ar, Kr) were investigated. The calculated interaction energies with basis set super-position error (BSSE) correction revealed that the relative stabilities of the complexes in the order: GeH4…He ˂ GeH4…Ne ˂ GeH4…Ar ≈ GeH4…Kr. The calculated results showed that the interactions between GeH4 and Y（Y=He, Ne）belong to van der Waals force, and those between GeH4 and Y（Y=Ar, Kr）belong to weak hydrogen bond. NBO (natural bond orbital theory) and electron behavior analysis showed that GeH4…Y(Y= Ar, Kr) hydrogen bond is with a non-electrostatic property.

scholarly journals A Theoretical Study of Hydrogen-Bonded Complexes of Ethylene Glycol, Thioglycol and Dithioglycol with Water

2021 ◽  
Vol 34 (1) ◽  
pp. 169-182
Author(s):  
Ruchi Kohli ◽  
Rupinder Preet Kaur
Keyword(s):  
Hydrogen Bond ◽  
Charge Transfer ◽  
Hydrogen Bonds ◽  
Ethylene Glycol ◽  
Structural Parameters ◽  
Intermolecular Hydrogen Bond ◽  
Basis Set ◽  
Interaction Energies ◽  
Orbital Theory ◽  
Hydrogen Bond Formation

In the present study, a theoretical analysis of hydrogen bond formation of ethylene glycol, thioglycol, dithioglycol with single water molecule has been performed based on structural parameters of optimized geometries, interaction energies, deformation energies, orbital analysis and charge transfer. ab initio molecular orbital theory (MP2) method in conjunction with 6-31+G* basis set has been employed. Twelve aggregates of the selected molecules with water have been optimized at MP2/6-31+G* level and analyzed for intramolecular and intermolecular hydrogen bond interactions. The evaluated interaction energies suggest aggregates have hydrogen bonds of weak to moderate strength. Although the aggregates are primarily stabilized by conventional hydrogen bond donors and acceptors, yet C-H···O, S-H···O, O-H···S, etc. untraditional hydrogen bonds also contribute to stabilize many aggregates. The hydrogen bonding involving sulfur in the aggregates of thioglycol and dithioglycol is disfavoured electrostatically but favoured by charge transfer. Natural bond orbital (NBO) analysis has been employed to understand the role of electron delocalizations, bond polarizations, charge transfer, etc. as contributors to stabilization energy.

scholarly journals Theoretical Investigation of the Cooperativity in CH3CHO·2H2O, CH2FCHO·2H2O, and CH3CFO·2H2O Systems

2012 ◽  
Vol 2012 ◽  
pp. 1-8 ◽  
Author(s):  
Asit K. Chandra ◽  
Thérèse Zeegers-Huyskens
Keyword(s):  
Hydrogen Bond ◽  
Natural Bond Orbital ◽  
Lone Pair ◽  
Blue Shift ◽  
Water Molecules ◽  
Interaction Energies ◽  
Hydrogen Bond Interaction ◽  
Orbital Parameters ◽  
Carbonyl Derivatives ◽  
Total Interaction

The hydrogen bond interaction between CH3CHO, CH2FCHO, and CH3CFO and two water molecules is investigated at the B3LYP/6-311++G(d,p) level. The results are compared with the complexes involving the same carbonyl derivatives and one water molecule. The calculations involve the optimization of the structure, the harmonic vibrational frequencies, and relevant NBO (natural bond orbital) parameters such as the NBO charges, the occupation of antibonding orbitals, and intra- and intermolecular hyperconjugation energies. Two stable cyclic structures are predicted. The two structures are stabilized by C=O⋯HO hydrogen bond. The A structures are further stabilized by CH⋯O bond involving the CH3 (CH2F) group. This bond results in an elongation of the CH bond and red shift of the ν(CH) vibration. The B structures are stabilized by CH⋯O interaction involving the aldehydic CH bond. The formation of this bond results in a marked contraction of the CH bond and blue shift of the ν(CH) vibration indicating the predominance of the lone pair effect in determining the CH distances. The total interaction energies range from −12.40 to −13.50 kcal mol−1. The cooperative energies calculated at the trimer geometry are comprised between −2.30 and −2.60 kcal mol−1.

A theoretical study of weak interactions in phenylenediamine homodimer clusters

2016 ◽  
Vol 18 (42) ◽  
pp. 29249-29257 ◽  
Author(s):  
Chengqian Yuan ◽  
Haiming Wu ◽  
Meiye Jia ◽  
Peifeng Su ◽  
Zhixun Luo ◽  
...  
Keyword(s):  
Density Functional Theory ◽  
Dft Calculations ◽  
Intermolecular Interactions ◽  
Density Functional ◽  
Theoretical Study ◽  
Natural Bond Orbital ◽  
Weak Interactions ◽  
Interaction Energies ◽  
Functional Theory ◽  
Weak Intermolecular Interactions

Utilizing dispersion-corrected density functional theory (DFT) calculations, we demonstrate the weak intermolecular interactions of phenylenediamine dimer (pdd) clusters, emphasizing the local lowest energy structures and decomposition of interaction energies by natural bond orbital (NBO) and atoms in molecule (AIM) analyses.

Evaluation of N—H...S and N—H...π interactions inO,O′-diethylN-(2,4,6-trimethylphenyl)thiophosphate: a combination of X-ray crystallographic and theoretical studies

2018 ◽  
Vol 74 (7) ◽  
pp. 847-855 ◽  
Author(s):  
Elham Torabi Farkhani ◽  
Mehrdad Pourayoubi ◽  
Mohammad Izadyar ◽  
Pavel V. Andreev ◽  
Ekaterina S. Shchegravina
Keyword(s):  
Hydrogen Bond ◽  
Hydrogen Bonds ◽  
Density Functional ◽  
Natural Bond Orbital ◽  
Crystal Packing ◽  
Hirshfeld Surface ◽  
Basis Set ◽  
Theoretical Studies ◽  
Functional Theory ◽  
X Ray

In the crystal structure ofO,O′-diethylN-(2,4,6-trimethylphenyl)thiophosphate, C13H22NO2PS, two symmetrically independent thiophosphoramide molecules are linked through N—H...S and N—H...π hydrogen bonds to form a noncentrosymmetric dimer, withZ′ = 2. The strengths of the hydrogen bonds were evaluated using density functional theory (DFT) at the M06-2X level within the 6-311++G(d,p) basis set, and by considering the quantum theory of atoms in molecules (QTAIM). It was found that the N—H...S hydrogen bond is slightly stronger than the N—H...π hydrogen bond. This is reflected in differences between the calculated N—H stretching frequencies of the isolated molecules and the frequencies of the same N—H units involved in the different hydrogen bonds of the hydrogen-bonded dimer. For these hydrogen bonds, the corresponding charge transfers,i.e.lp (or π)→σ*, were studied, according to the second-order perturbation theory in natural bond orbital (NBO) methodology. Hirshfeld surface analysis was applied for a detailed investigation of all the contacts participating in the crystal packing.

scholarly journals Theoretical Evaluation on The Interaction Between Triglycerides and Methylxanthines Using Density Functional Theory B3LYP/6-31G(d,p) and Molecular Electrostatic Potential

2020 ◽  
Vol 33 (1) ◽  
pp. 171-178
Author(s):  
N.F.M. Azmi ◽  
R. Ali ◽  
A.A. Azmi ◽  
M.Z.H. Rozaini ◽  
K.H.K. Bulat ◽  
...  
Keyword(s):  
Density Functional Theory ◽  
Hydrogen Bond ◽  
Electrostatic Potential ◽  
Density Functional ◽  
Molecular Electrostatic Potential ◽  
Basis Set ◽  
Individual Species ◽  
Interaction Energies ◽  
Binding Interaction ◽  
Functional Theory

The binding, interaction and distortion energies between the main triglycerides, palmitic-oleic-stearic (POS) in cocoa butter versus palmitic-oleic-palmitic (POP) in refined, bleached and deodorized (RBD) palm oil with cocoa′s methylxanthines (caffeine, theobromine, and theophylline) during the production of chocolate were theoretically studied and reported. The quantum mechanical software package of Gaussian09 at the theoretical level of density functional theory B3LYP/6-31G(d,p) was employed for all calculations, optimization, and basis set superposition errors (BSSE). Geometry optimizations were carried out to the minimum potential energy of individual species and binary complexes formed between the triglycerides, methylxanthines and polyphenols. The interaction energies for the optimized complexes were then corrected for the BSSE using the counterpoise method of Boys and Bernardi. The results revealed that the binding energy and interaction energy between methylxanthine components in cocoa powder with triglycerides were almost of the same magnitude (13.6-14.5 and 3.4-3.7 kJ/mol, respectively), except for the binary complex of POS-caffeine (25.1 and 10.7 kJ/mol, respectively). Based on the molecular geometry results, the hydrogen bond length and angle correlated well with the interaction energies. Meanwhile, the POS-caffeine complex with two higher and almost linear bond angles showed higher binding and interaction energies as compared to the other methylxanthines. Therefore, a donor-acceptor analysis showed that the hydrogen bond strength was proven using the molecular electrostatic potential (MEP), which resulted in parallel outcomes. The research results were believed to be one of the factors that contributed to the rheological behaviour and sensory perception of cocoa products, especially chocolate.

Can THF hydrogen bond to glycine as strong as water?

2017 ◽  
Vol 95 (6) ◽  
pp. 664-673 ◽  
Author(s):  
Damanjit Kaur ◽  
Geetanjali Chopra ◽  
Rajinder Kaur
Keyword(s):  
Hydrogen Bond ◽  
Electrostatic Interactions ◽  
Density Functional ◽  
Dominant Role ◽  
Basis Set ◽  
Hydrogen Bond Donor ◽  
Orbital Theory ◽  
Interaction Terms ◽  
Stability Of Complexes ◽  
The Stability

Hydrogen bond complexation between glycine and THF and between glycine and water involving four lowest-energy glycine conformers have been studied. The complexes have been investigated in the gas phase at the ab initio molecular orbital theory (MP2) with aug-cc-pVDZ basis set and density functional theory (B3LYP) with aug-cc-pVTZ basis set. Bader’s theory of atoms in molecules (AIM), natural bond orbital (NBO), and symmetry adapted perturbation theory (SAPT) analyses are employed to elucidate the interaction characteristics in the complexes. The premise that the hydrogen bond donor ability of the O–H group of the carboxyl group dominates the interaction between glycine and THF and between glycine and water is confirmed. It is found that in comparison with water, THF binds more strongly to glycine. The quantum studies indicate that contribution of N–H···O and C–H···O hydrogen bonds in the complexes, although lower in magnitude to O–H···O interactions, play an important role in the stability of complexes. The blue and red shifts in the stretching frequencies of the hydrogen bond donors X–H (X = O, C, N) have also been related to stabilization energies. Decomposition of the stabilization energy based on the SAPT method clearly indicates the dominant role of the electrostatic interactions in all the complexes under study; however, induction and dispersion interaction terms are relatively higher in glycine–THF complexes.

Theoretical investigation on the interplay of hydrogen bond and halogen bond in HX⋯(BrCl)n (X = F, Cl, Br and n = 1, 2) complexes

2014 ◽  
Vol 13 (01) ◽  
pp. 1450001 ◽  
Author(s):  
Hexiu Liu ◽  
Ruilin Man ◽  
Zhaoxu Wang ◽  
Pinggui Yi ◽  
Jingjing Liu
Keyword(s):  
Hydrogen Bond ◽  
Molecular Electrostatic Potential ◽  
Halogen Bond ◽  
Atomic Charge ◽  
Molecular Complexes ◽  
Basis Set ◽  
Formation Mechanisms ◽  
Interaction Energies ◽  
Aim Analysis ◽  
Topological Characteristics

Quantum chemical calculations at the MP2 level with the aug-cc-pVTZ basis set were used to investigate the HX ⋯( BrCl )n ( X = F , Cl , Br and n = 1, 2) complexes. They are connected via hydrogen bond or halogen bond in dimers and together in trimers. Molecular geometries, interaction energies, cooperative energies and atomic charge of dyads and triads have been studied at the Mp2/aug-cc-pVTZ computational level. All studied trimers show cooperativity with the simultaneous presence of a hydrogen and one or two halogen bond. The molecular electrostatic potential has been employed to explore the formation mechanisms of these molecular complexes. The AIM analysis has been performed at the Mp2/aug-cc-pVTZ level to examine the topological characteristics, confirming the coexistence of hydrogen bonds and one or two halogen bond for each complex.

Theoretical investigation of some N-nitrosodiphenylamine biological molecules — A natural bond orbital (NBO) study

2011 ◽  
Vol 89 (10) ◽  
pp. 1230-1235
Author(s):  
Xiao-Hong Li ◽  
Rui-Zhou Zhang ◽  
Xian-Zhou Zhang
Keyword(s):  
Density Functional ◽  
Theoretical Study ◽  
Natural Bond Orbital ◽  
Nbo Analysis ◽  
Biological Molecules ◽  
Basis Set ◽  
Natural Hybrid ◽  
Functional Theory ◽  
Molecular Stability ◽  
Hybrid Orbitals

Theoretical study of several N-nitrosodiphenylamine biological molecules has been performed using quantum computational ab initio RHF and density functional B3LYP and B3PW91 methods with 6–311G++(d,p) basis set. Geometries obtained from density functional theory (DFT) calculations were used to perform Natural bond orbital (NBO) analysis. The p characters of two nitrogen natural hybrid orbitals (NHOs) σN3−N2 increase with increasing σp values of the substituents on the benzene, which results in a lengthening of the N3–N2 bond. The p characters of oxygen NHO σO1−N2 and nitrogen NHO σO1−N2 bond orbitals decrease with increasing σp values of the substituents on the benzene, which results in a shortening of the N2=O1 bond. It is also noted that decreased occupancy of the localized σN3−N2 orbital in the idealized Lewis structure, or increased occupancy of [Formula: see text]of the non-Lewis orbital, and their subsequent impact on molecular stability and geometry (bond lengths) are also related to the resulting p character of the corresponding nitrogen NHO of σN3−N2 bond orbital.

Density Function Theory Study on the Recognition of the Urea-Based Involving Bromine Derivation Receptor for the Halogen Anions

2013 ◽  
Vol 328 ◽  
pp. 850-854
Author(s):  
Kun Yuan ◽  
Hui Xue Li ◽  
Huian Tang ◽  
Yuan Cheng Zhu
Keyword(s):  
Hydrogen Bonds ◽  
Density Function ◽  
Halogen Bond ◽  
Blue Shift ◽  
Nbo Analysis ◽  
Basis Set ◽  
Host Recognition ◽  
Halogen Bonds ◽  
Orbital Theory ◽  
Recognition Mechanism

The recognition mechanism of the urea-based involving Br derivation receptor (A) for the halogen anions through hydrogen bond and halogen bond was discussed by the density function Becke, three-parameter, Lee-Yang-Parr (B3LYP) method. The results showed that the guest-host recognition was performed by using four coordination weak bonds, which include two N-H...X hydrogen bonds and two C-Br...X halogen bonds (X= F-,Cl-,Br- and I-). The calculated interaction energies (ΔECP) with basis set super-position error (BSSE) correction of the four systems are-3.95, -82.43, -70.86 and 992.63 kJmol-1, respectively. So, the urea-based derivation receptor (A) presents the best recognition capable for the Br- and Cl-, and it can not recognize the I- in the same condition. Natural bond orbital theory (NBO) analysis has been used to investigate the electronic behavior and property of the red-shift N-H...X hydrogen bonds and two blue-shift C-Br...X halogen bonds in the A...X- systems.

NBO Analysis the Chlorine Anion Recognition Mechanism of the Urea-Based Involving Iodine and Fluorine Derivation Functional Molecular Material

2013 ◽  
Vol 634-638 ◽  
pp. 15-19
Author(s):  
Yan Zhi Liu ◽  
Yan Liu ◽  
Kun Yuan ◽  
Yuan Cheng Zhu
Keyword(s):  
Hydrogen Bonds ◽  
Anion Recognition ◽  
Blue Shift ◽  
Nbo Analysis ◽  
Basis Set ◽  
Halogen Bonds ◽  
Orbital Theory ◽  
Recognition Mechanism ◽  
Chlorine Anion ◽  
B3lyp Method

The recognition mechanism of the urea-based non-involving fluorine (A) and involving fluorine (B) derivation receptors for the chlorine anion (Cl-) was discussed by using the density function B3LYP method. The results showed that recognition mechanism was performed by using four coordination weak bonds, which include two N-H…Cl hydrogen bonds and two C-I…Cl halogen bonds. The calculated interaction energies (ΔECP) with basis set super-position error (BSSE) correction of the two systems are -121.78 and -179.71 kJ•mol-1, respectively. So, the urea-based involving fluorine derivation receptor (B) presents the better recognition capable for the Cl-. Natural bond orbital theory (NBO) analysis has been used to investigate the electronic behavior and property of the N-H…Cl hydrogen bonds and two blue-shift C-I…Cl halogen bonds in the A…Cl- and B…Cl- recognition systems, respectively.

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