Molecular structure,experimental and theoretical 1H and 13C NMR chemical shift assignment of cyclic and acyclic α,β‐unsaturated esters

The experimental ¹H and ¹³C NMR spectra of 13 phenyl cinnamates and four 4‐methylcoumarins were investigated and their chemical shifts assigned on the basis of the two‐dimensional spectra. For the unsubstituted cinnamic acid phenyl ester, optimized molecular structures were calculated at a B3LYP/6‐311++G(d,p) level of theory. ¹H and ¹³C NMR chemical shifts were also calculated with the GIAO method at the B3LYP/6‐311 + G(2d,p) level of theory. The comparison between experimental and calculated NMR chemical shift suggests that the experimental spectra are formed from the superposition spectra of the two lowest energy conformers of the compound in solution. The most stable s‐cis configuration found in our studies is also the conformation adopted for a related phenyl cinnamate in solid state. The experimental results were analyzed in terms of the substituent effects. Copyright © 2013 John Wiley & Sons, Ltd.     

Ab initio predictions of zeolite structures and Si NMR chemical shifts

A recent shell-model potential parameterized on ab initio data is used for predicting the all-silica structures of zeolites MFI, MEI, MTW, TON, FAU and of α-quartz. Cluster models are defined around each site and the ²⁹Si NMR shielding constants are calculated by ab initio techniques (GIAO-HF). Good agreement with observed ²⁹Si NMR chemical shifts is found. Comparison is made with shifts calculated for observed structures. The structures predicted by the ab initio shell-model potential prove as accurate as the observed ones when judged on the quality of the calculated ²⁹Si NMR spectra.     

含手性轴的季戊四醇双缩醛的NMR研究

采用1D和2D梯度场NMR技术(包括1D ¹H NMR, ¹³C NMR, DEPT, 2D ¹H-¹H COSY, HSQC, HMBC),对3,3′-二（2,4-二氯苯基）-2,4,2′,4′-四氧杂螺[5.5]十一烷的4个亚甲基呈现的4组裂分峰进行了明确的归属,也对化合物中其它¹H和¹³C NMR谱信号进行了全归属,为四氧杂螺双缩醛类化合物的结构鉴定提供了充分依据.     

Theoretical analysis on structural,spectroscopic, and electronic properties of some 2-aminobenzimidazole complexes by using PBE1PBE,B3LYP,and HF methods

The molecular geometry, vibrational frequencies, gauge including atomic orbital (GIAO) ¹H and ¹³C chemical shift values of ABZ-TNB [ABZ-TNB: 2-aminobenzimidazole-trinitrobenzene] and ABZ-PA [ABZ-PA: 2-aminobenzimidazole-picric acid] in the ground state were calculated by using density functionals (B3LYP and PBE1PBE) and Hartree-Fock (HF) methods with the 6–31 ++ G(d,p) basis set. Furthermore, the electronic spectrum of title complexes was calculated with the time dependent DFT levels (TD-PBE1PBE and TD-B3LYP) and HF (TD-HF) method starting from the ground state geometry optimized in the gas phase. A detailed assignment of vibrational spectra was made on the basis of the calculated potential energy distribution (PED). Total static dipole moment (μ), the mean polarizability (〈α〉), the anisotropy of the polarizability (Δα), the mean first-order hyperpolarizability (〈β〉), highest occupied molecular orbital (HOMO) and lowest unoccupied molecular orbital (LUMO) energies, chemical hardness (η) and electronegativity (χ) of ABZ-TNB and ABZ-PA complexes were also investigated with quantum chemical calculations. Additionally, data obtained from quantum chemical calculations were compared with the experimental ones.     

Synthesis,spectroscopic characterization,and computed optical analysis of green fluorescent cyclohexenone derivatives

Cyclohexenone containing chalcones core is one important class of materials, which exhibit high nonlinear optical (NLO) responses and good crystallizability. The present study reports the successful development of six new fluorescent cyclohexenone derivatives (CDs) via conventional Robinson annulation method. The molecular structures of these newly synthesized CDs were confirmed by using various analytical techniques such as ¹H NMR, ¹³C NMR, FTIR, EIMS, UV–Vis spectroscopy and single crystal X‐ray diffraction. The crystallographic data revealed that the spatial structure of the representative CD (4BE) belongs to monoclinic, P2₁/c space group. The results from luminescence studies show that the CDs molecules apparently emit intense green light at room temperature in aqueous media. The relative polarity and molecular chemical stability of the CDs molecules were predicted by measuring the molecular electrostatic potential and frontier molecular orbital energy. In addition, the UV–Vis spectra, transition character and electronic structures of these CDs were computed by using quantum chemical methodology. It was interesting to note that the values of computed and experimental electronic transitions (λ_max) were in good agreement and these CDs display high hyperpolarizability (β) values. The present work will be helpful for systematical understanding of the structures and the optical properties of CDs for studying the structure–activity relationship that will suggest their potential application in photonic devices. Copyright © 2015 John Wiley & Sons, Ltd.     

离子性指数、立体效应参数与膦类化合物31P NMR δP的关系

利用离子性指数(INI)和立体效应参数（α、β、γ）对100个膦化合物中磷原子进行结构表征，并与其核磁共振磷谱(³¹P NMR)建立了优良的定量构谱相关(QSSR)模型：δ_P=-163.695 3-1.003 1INI+34.632 7α+13.892 9β-3.331 7γ. 建模的计算值、留一法(Leave-One-Out, LOO)交互校验(Cross-Validation, CV)预测值的复相关系数(R)分别为0.976 5和0.973 9. 所建模型不仅在一定程度上阐明了膦类化合物³¹P NMR谱化学位移与其分子结构信息之间的关系，同时也提供了一种从理论上计算膦类化合物³¹P NMR谱化学位移的新方法，并对深入了解膦类化合物结构与性能的关系及解析、预测其³¹P NMR谱提供了一定的理论依据.     

A density functional theory investigation of the stability,aromaticity, and photophysical behavior for the highly conjugated macrocycles containing 4 pyrroles

Porphyrin ( Pr ), porphycene ( Pc ), and [22]porphyrin(2.2.2.2) ( P[22] ) have been theoretically investigated. We design 2 highly conjugated macrocycles containing 4 pyrroles with different linkage bridges, which are named for 4 pyrrole ( Pf ) and methylene‐dipyrrolidine ( Pm ), as the theoretical model so as to investigate the stability, aromaticity, and photophysical behavior of these porphyrin derivatives, and the influence of getting or losing electron to the neutral molecule. The geometric structures of the molecules are optimized by density functional theory method. The absorptions are calculated by the time‐dependent density functional theory method. Based on the optimized structures, the nucleus‐independent chemical shifts (NICS) are calculated. The molecule with negative NICS value possesses larger highest occupied molecular orbital (HOMO)‐lowest occupied molecular orbital (LUMO) gap than that with positive NICS value, the molecule with bigger positive NICS value possesses smaller HOMO‐LUMO gap, and the molecule with bigger negative NICS value (in absolute value) possesses bigger HOMO‐LUMO gap. The current density indicates that the π‐electron delocalization is more effective in Pr and Pc than in Pf , Pm , and P[22] and corresponds to the stability of molecules. The absorptions of the molecules are all in the UV‐visible and infrared regions. The major transitions for most of the molecules are all from HOMO to LUMO. Compared with Pf ^2? , Pr ^2? , Pc ^2? , and P[22] ^2? , Pm ^2? shows distinctive photophysical properties, which is due to the reduced HOMO‐LUMO gap, structural distortion, and strong antiaromaticity.     

Molecular structure, spectroscopic properties and DFT calculations of 2-(methylthio)nicotinic acid

The analyses of possible conformations, molecular structures, vibrational and electronic properties of 2-(methylthio)nicotinic acid molecule, C₇H₇NO₂S, with the synonym 2-(methylsulfanyl)nicotinic acid have been first presented theoretically. At the same time, FT-IR and micro-Raman spectra of 2-(methylthio)nicotinic acid were recorded in the regions 400–4000 cm^?1 and 100–4000 cm^?1, respectively. In our calculations, the DFTB3LYP method with 6–311G(d, p) basis set was used to have the structural and spectroscopic data about the mentioned molecule in the ground state and the results obtained were compared with experimental values. Furthermore, gauge invariant atomic orbital (GIAO) ¹H and ¹³C NMR chemical shifts in different solvents, UV-vis TD-DFT calculations, the highest occupied molecular orbitals (HOMO-2, HOMO-1, HOMO), lowest unoccupied molecular orbital (LUMO), molecular electrostatic potantial (MEP) surface, atomic charges and thermodynamic properties of molecule have been theoretically verified and simulated at the mentioned level. The energetic behavior of title molecule in different solvent media was investigated by using DFT/B3LYP method with 6–311G(d, p) basis set in terms of integral equation formalism polarizable continuum model (IEFPCM). In addition, the calculated infrared intensities, Raman activities, reduce masses and force constants of the compound under study have been also reported.     

Investigating the nuclear magnetic resonance of the structure of electrolyte based on a LiClO4—ethylene carbonate solution

We establish the molecular structure of LiClO₄ solution in ethylene carbonate with different lithium perchlorate concentrations (from the strongest dilution 0.01 M to 3 M). Agreement with the experimental NMR spectra is achieved. Calibration molecular structures for calculating the chemical shifts of ¹H, ⁷Li, ¹³C, ¹⁷O, and ³⁵Cl nuclei are proposed.     

Tautomeric populations of the charged species of 1,12‐diamino‐3,6,9‐triazadodecane (SpmTrien) studied with computer simulations and cluster expansions

Correct net charge and protonation pattern in the polyamine backbone is one of the major factors that define the interactions of this class of compounds. 1,12‐diamino‐3,6,9‐triazadodecane (SpmTrien) is a isosteric charge deficient analogue of naturally occurring spermine (Spm) with different biological features. The tautomeric populations of each SpmTrien charge state were estimated with computer simulations, molecular dynamics (MD) and quantum mechanical calculations, and cluster expansions separately. In the computer simulations, tautomeric populations of each charge state were obtained by constrained least‐squares fitting the theoretically calculated (GIAO B3LYP/6‐311 + G**) ¹⁵ N NMR chemical shieldings of SpmTrien tautomers to the experimentally measured chemical shifts. Theoretical chemical shieldings were calculated for water complexes of SpmTrien obtained from MD simulations in explicit water. Both methods gave highly similar realistic results. SpmTrien has many major populations of tautomers at biologically relevant charge states of three (+3) and four (+4) thus enabling a large variety of structures for specific ionic interactions. Copyright © 2013 John Wiley & Sons, Ltd.     

High-resolution solid-state NMR structure of Alanyl-Prolyl-Glycine

We present a de novo high-resolution structure of the peptide Alanyl-Prolyl-Glycine using a combination of sensitive solid-state NMR techniques that each yield precise structural constraints. High-quality ¹³C–¹³C distance constraints are extracted by fitting rotational resonance width (R²W) experiments using Multimode Multipole Floquet Theory and experimental chemical shift anisotropy (CSA) orientations. In this strategy, a structure is first calculated using DANTE-REDOR and torsion angle measurements and the resulting relative CSA orientations are used as an input parameter in the ¹³C–¹³C distance calculations. Finally, a refined structure is calculated using all the constraints. We investigate the effect of different structural constraints on structure quality, as determined by comparison to the crystal structure and also self-consistency of the calculated structures. Inclusion of all or subsets of these constraints into CNS calculations resulted in high-quality structures (0.02 Å backbone RMSD using all 11 constraints).     

Structure and properties of some chiralanes and chirolanes

The molecular structures, spectra and properties of six chiralanes and chirolanes (approximately spheroidal, saturated, cage hydrocarbons) have been determined by density functional theory (DFT) quantum chemistry calculations. The main features determined are: molecular geometry, partial atomic charges, standard enthalpy of formation, IR, nuclear magnetic resonance (NMR) and circular dichroism (CD) spectra. On the basis of the calculated standard enthalpies of formation and highest occupied molecular orbital (HOMO)–lowest unoccupied molecular orbital (LUMO) gaps, we suggest that chiralanes/chirolanes are potential synthetic targets. We have calculated the anomalously large downfield ¹³C-NMR shifts for endohedral carbons in the spectra of [5.5] and [5.7]chiralanes.     

羰基化合物分子距边矢量与其13C NMR δC的关系

通过对155个羰基化合物中羰基碳原子的¹³C NMR谱与其分子距离-边数矢量(MDE)、立体效应参数(γ 效应)关系的研究，发现羰基化合物羰基碳的¹³C NMR谱化学位移可表示为：

δ_C=a+bμ₅₁+cμ₅₂+dμ₅₃+eμ₅₄+fγ

此式不仅在一定程度上表明了羰基化合物¹³C NMR谱化学位移与其分子结构信息之间的关系，同时也提供了一种计算羰基化合物¹³C NMR化学位移的新方法，并对解析和预测其¹³C NMR谱提供了理论依据.      

First-principles study of the local structure and crystal field of Yb2+ in sodium and potassium halides

The local coordination structures around the doping Yb²⁺ ions in sodium and potassium halides were calculated by using the first-principles supercell model. Both the cases with and without the charge compensation vacancy in the local environment of the doping Yb²⁺ were calculated to study the effect of the doping on the local coordination structures of Yb²⁺. Using the calculated local structures, we obtained the crystal-field parameters for the Yb²⁺ ions doped in sodium and potassium halides by a method based on the combination of the quantum-chemical calculations and the effective Hamiltonian method. The calculated crystal-field parameters were analyzed and compared with the fitted results.     

Chemical hardness-based prediction of the surface tension and enthalpy changes of sublimation for alkali halides

A new theoretical route employing the concept of chemical hardness has been developed to predict the surface tension γ and the changes of the standard enthalpies (CSEs) of sublimation Δ_sH⁰ of alkali halides. The values of these quantities have been calculated by means of the ratios η_M/V^1/3_m where η_M and V_m are the molecular hardness and molecular volume, respectively. The obtained results have been compared with those of previous theoretical models as well as with experimental data.     

Calculations of <Superscript>31</Superscript>P Magnetic Shielding Constants of Derivatives of Betaine and Phosphine Molecules Dissolved in Different Solvents by Using Supermolecular Model and Combined Methods of Quantum Chemistry and Molecular Mechanics

Spatial structures of molecular clusters modeling a solvate shell around phosphorus-containing methyl- and butyl-derivatives of phosphine and betaine molecules dissolved in different solvents (acetone, toluene, formamide) have been calculated by using different variants of density functional theory (unrestricted Becke three-parameter Lee–Yang–Parr [UB3LYP], Perdew–Burke–Ernzerhof [PBE], optimized exchange functional [OPTX] developed by Handy and Cohen in conjunction with Lee–Yang–Parr [LYP] correlational functional [OLYP]) with 6-31G(d,p) and 6-31G++(d,p) basis sets. The ³¹P magnetic shielding constants for the structures are calculated with the usage of gauge-including atomic orbitals in UB3LYP/6-31G(d,p) and 6-31G++(d,p) methods. The modeling of molecular clusters is done by using the supermolecular model, the molecular mechanics method and the combination of quantum chemistry and molecular mechanics methods (QM/MM). The own N-layered integrated molecular orbital method (ONIOM) has been applied for modeling and calculating of isotropic ³¹P nucleus magnetic shielding of clusters of trimethylphosphine and trimethylbetaine molecules dissolved in acetone using combinations of UB3LYP/6-31G(d,p) (higher level) and unrestricted Hartree–Fock (UHF)/6-31G(d,p) (lower level) methods. Applicability of the ONIOM approach and different ways of modeling to the calculation of ³¹P nucleus magnetic shielding constants is studied. A comparison of the results obtained by the density functional theory, ONIOM and MM methods is given.     

On the theory of the molecular states of <Emphasis Type="Italic">A</Emphasis><Superscript>+</Superscript>-centers in semiconductor quantum wells

The spectra of photoluminescence in the GaAs/AlGaAs quantum wells with A ₂⁺-centers are calculated within the model of the zero radius potential. It is shown that the model of A ₂⁺-centers can adequately describe the experimental data that point to the existence of molecular states of A ⁺-centers in 2D GaAs/AlGaAs structures.     

FT‐Raman and FT‐IR spectral and quantum chemical studies on some flavonoid derivatives: Baicalein and Naringenin

In this study, the experimental and theoretical results on the molecular structures of some flavonoid derivatives (Baicalein and Naringenin) are presented. The FT‐IR and FT‐Raman spectra of the compounds have been recorded together for the first time between 4000–400 cm⁻¹ and 3500–5 cm⁻¹ regions, respectively. The molecular geometry and vibrational wavenumbers of the compounds have been also calculated in their ground states by using ab initio HF and DFT/B3LYP functional with 6‐31G(d,p) basis set used in calculations. The calculations were utilized to the C₁ symmetries of the molecules. All calculations were performed with Gaussian 98 software. The obtained vibrational wavenumbers and optimized geometric parameters were seen to be in good agreement with the experimental data. Scale factors have been used in order to compare how the calculated and experimental data are in agreement. Theoretical infrared intensities were also reported. Copyright © 2008 John Wiley & Sons, Ltd.     

Model multilayer structures for three-dimensional cell imaging

The prospects for SIMS three-dimensional analysis of biological materials were explored using model multilayer structures. The samples were analyzed in a ToF-SIMS spectrometer equipped with a 20 keV buckminsterfullerene (C₆₀⁺) ion source. Molecular depth information was acquired using a C₆₀⁺ ion beam to etch through the multilayer structures at specified time intervals. Subsequent to each individual erosion cycle, static SIMS spectra were recorded using a pulsed C₆₀⁺ ion probe. Molecular intensities in sequential mass spectra were monitored as a function of primary ion fluence. The resulting depth information was used to characterize C₆₀⁺ bombardment of biological materials. Specifically, molecular depth profile studies involving dehydrated dipalmitoyl-phosphatidylcholine (DPPC) organic films indicate that cell membrane lipid materials do not experience significant chemical damage when bombarded with C₆₀⁺ ion fluences greater than 10¹⁵ ions/cm². Moreover, depth profile analyses of DPPC-sucrose frozen multilayer structures suggest that biomolecule information can be uncovered after the C₆₀⁺ sputter removal of a 20 nm overlayer with no appreciable loss of underlying molecular signal. The experimental results support the potential for three-dimensional molecular mapping of biological materials using cluster SIMS.