Structural analysis of aristolochic acids and aristolactams by correlations between calculated and experimental <Superscript>13</Superscript>C NMR chemical shifts

Aristolactam AII (1) and aristolochic acid I (2) were employed as examples in choosing the most suitable theoretical methodology for computing carbon chemical shifts (^Calc δ _C) and for the structural elucidations of aristolactams and aristolochic acids. Geometries of 1 and 2 optimized using HF, BLYP, B3LYP, and PBE methods and 6-311++G** basis set were subjected to δ_C calculations and the calculated chemical shifts obtained were correlated with their ¹³C NMR data. Different possibilities were considered (in the gaseous phase, model PCM (DMSO), and for dimeric systems 1-1 and 2-2), and an explicit solvent (DMSO) model employing BLYP/6-31G* calculations was determined to be the most efficient (R ² = 0.99631 and 0.97713, for 1 and 2, respectively).     

Complete <Superscript>1</Superscript>H and <Superscript>13</Superscript>C NMR signal assignments and chemical shift calculations of four 1,2,4-oxadiazole-based light-emitting liquid crystals

In this article, we describe the complete ¹H and ¹³C NMR signal assignments of four 1,2,4-oxadiazoles possessing light-emitting liquid crystal properties. These results were obtained by using one- and two-dimensional NMR techniques as well as GIAO (PCM) calculations at B3LYP/6-311++G(d,p) level for compounds 1 and 2a–d. The computed values are in good agreement with the ones obtained experimentally. In addition, some previously unexplained thermotropic features of compounds 2a–d could be clarified with the help of the geometry optimization calculations carried out by us.     

Quantitative <Superscript>2</Superscript>H NMR spectroscopy

The selectivity of deuterium distribution between the nonequivalent positions in 3-carene (1), 4-α-acetyl-2-carene (2), and 4-(1-hydroxyethyl)-2-carene (3) has been measured by ²H-{¹H} NMR spectroscopy at the natural abundance of deuterium. These “H/D-isotope portraits” were shown to be typical of terpenes and terpenoids produced in plants via the biosynthetic DXP pathway. The mechanism of acylation of 1 was studied by the density functional theory method (PBE functional, TZ2p basis set). The six-membered ring in compound 1 is planar. However, the endo attack of electrophiles on this ring is more favorable both kinetically and thermodynamically. It was shown both experimentally and theoretically that the elimination of a hydrogen atom in the second reaction step proceeds stereoselectively at the C(2) atom from the anti position with respect to the three-membered ring and occurs with pronounced nucleophilic assistance from the carbonyl group. For Part 2, see Ref. 1. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 8, pp. 1657–1664, August, 2008.     

Non-empirical and DFT calculations of <Superscript>19</Superscript>F and <Superscript>13</Superscript>C chemical shifts in the NMR spectra of substituted pentafluorobenzenes

Chemical shifts in ¹⁹F and ¹³C NMR spectra of substituted pentafluorobenzenes are calculated by Hartree-Fock and density functional theory methods. The calculated values are compared with the experimental data known from the literature. It is shown that chemical shifts in non-polar solvents can be predicted sufficiently accurately by the GIAO-DFT(PBE/L22) method. This method is used to predict the ¹⁹F and ¹³C chemical shifts of a heptafluorobenzyl cation in the SbF₅ medium. The best agreement between the calculated and experimental values is achieved when the counterion effect is taken into account.     

GIAO/DFT studies on 1,2,4‐triazole‐5‐thiones and their propargyl derivatives

Density functional theory (DFT)/Becke–Lee–Yang–Parr (B3LYP) and gauge‐including atomic orbital (GIAO) calculations were performed on a number of 1,2,4‐triazole derivatives, and the optimized structural parameters were employed to ascertain the nature of their predominant tautomers. ¹³C and ¹⁵N NMR chemical shifts of 3‐substituted 1,2,4‐triazole‐5‐thiones and their propargylated derivatives were calculated via GIAO/DFT approach at the B3LYP level of theory with geometry optimization using a 6‐311++G** basis set. A good agreement between theoretical and experimental ¹³C and ¹⁵N NMR chemical shifts could be found for the systems investigated. The data generated were useful in predicting ¹⁵N chemical shifts of all the nitrogen atoms of the triazole ring, some of which could not be obtained in solution state ¹⁵N HMBC/HSQC NMR measurements. The energy profile computed for the dipropargylated derivatives was found to follow the product distribution profile of regioisomers formed during propargylation of 1,2,4‐triazole thiones. Copyright © 2013 John Wiley & Sons, Ltd.     

Effects of different GIAO and CSGT models and basis sets on 2-aryl-1,3,4-oxadiazole derivatives

The direct molecular structure implementations of the gage-including atomic orbital (GIAO), individual gages for atoms in molecules (IGAIM) and continuous set of gage transformations (CSGT) methods for calculating nuclear magnetic shielding tensors at both the Hartree-Fock (HF) and density functional (B3LYP) levels of theory with 6-31G(d), 6-311G(d), 6-31++G(d,p), 6-311++G(d,p), and 6-311++G(df,pd) basis sets are presented. Dependence on the ¹H and ¹³C NMR chemical shifts on the choice of method and basis set have been investigated. Also, these chemical shifts of 2-aryl-1,3,4-oxadiazoles 5a–g have been performed related to dihedral angles (C4–C3–C2–O) of two conformers. The optimized molecular geometries and ¹H and ¹³C chemical shift values of 2-aryl-1,3,4-oxadiazoles 5a–g in the ground state have been obtained. The linear correlation coefficients of ¹³C NMR chemical shifts for these molecules were given. The new nuclear magnetic shielding tensors of tetramethylsilane (TMS) were calculated. The data of 2-aryl-1,3,4-oxadiazole derivatives display significant molecular structure and NMR analysis. Also, these provide the basis for future design of efficient materials having the 1,3,4-oxadiazole core.     

Quantum‐chemical,IR, NMR,and X‐ray diffraction studies on 2‐(4‐chlorophenyl)‐1‐methyl‐ 1H‐benzo[d]imidazole

The title molecule, 2‐(4‐chlorophenyl)‐1‐methyl‐1H‐benzo[d]imidazole (C₁₄H₁₁ClN₂), was prepared and characterized by ¹H NMR, ¹³C NMR, IR, and single‐crystal X‐ray diffraction. The molecular geometry, vibrational frequencies, and gauge including atomic orbital (GIAO) ¹H and ¹³C NMR chemical shift values of the title compound in the ground state have been calculated by using the Hartree‐Fock (HF) and density functional theory (DFT/B3LYP) method with 6‐31G(d) basis sets, and compared with the experimental data. The calculated results show that the optimized geometries can well reproduce the crystal structural parameters, and the theoretical vibrational frequencies and GIAO ¹H and ¹³C NMR chemical shifts show good agreement with experimental values. The energetic behavior of the title compound in solvent media has been examined using B3LYP method with the 6‐31G(d) basis set by applying the Onsager and the polarizable continuum model (PCM). Besides, molecular electrostatic potential (MEP), frontier molecular orbitals (FMO) analysis, and nonlinear optical (NLO) properties of the title compound were investigated by theoretical calculations. © 2010 Wiley Periodicals, Inc. Int J Quantum Chem, 2011     

(±)Alkyl 3-hydroxy-1-azabicyclo[2.2.2]octane-3-carboxylates: conformational preferences of the alkoxycarbonyl group

Molecular mechanics, ab initio (RHF) and density functional (DFT/B3LYP) methods are applied to investigate the conformational preferences of the methoxycarbonyl group of the (±)methyl 3-hydroxy-1-azabicyclo[2.2.2]octane-3-carboxylate. ¹H and ¹³C chemical shifts are also calculated by the GIAO/DFT approach and compared with experimental values. Both theoretical and experimental data account for almost eclipsed conformations with different degrees of distortion from the ideal geometry. It is found that calculations at the B3LYP/6-311G(d,p) level are relatively more reliable to explain the behaviour of the alkoxycarbonyl moiety of 2-hydroxyesters derived from the (±)3-hydroxy-1-azabicyclo[2.2.2]octane-3-carboxylic acid.     

Experimental and theoretical studies of diethyl 2-(<Emphasis Type="Italic">ter</Emphasis>-butylimino)-2,5-dihydro-5-oxo-1-phenyl-1H-pyrrole-3,4-dicarboxylate using DFT calculations

In this study, diethyl 2-(ter-butylimino)-2,5-dihydro-5-oxo-1-phenyl-1H-pyrrole-3,4-dicarboxylate compound 1 is synthesized and characterized by FT-IR, ¹H and ¹³C NMR spectroscopy. The DFT calculations are carried out for compound 1 by B3LYP and PBE1PBE methods. The bond lengths, bond angles, dihedral angles, charge density on the atoms of 1 are calculated. A comparison of the DFT calculations indicate that the B3LYP method with the 6-311G++(d,p) basis set can give accurate results. The ¹³C NMR and ¹H NMR chemical shifts of 1 are calculated and compared with the available experimental data on the molecules. The nuclear independent chemical shift (NICS) calculations are utilized for the pyrrole ring in compound 1.     

[1-B<Subscript>10</Subscript>H<Subscript>9</Subscript>N<Subscript>2</Subscript>]<Superscript>−</Superscript> and [1-CB<Subscript>9</Subscript>H<Subscript>10</Subscript>]<Superscript>−</Superscript> anions: an attempt of quantum chemical calculations

Comparative quantum chemical calculations of structural parameters, chemical shifts of ¹¹B NMR spectra, and atomic charges in 10-vertex boron hydride anions [1-CB₉H₁₀]⁻ and [1-B₁₀H₉N₂]⁻ were performed using the restricted Hartree-Fock method with the 6-31++G(D,P) basis set. Dedicated to Academician G. A. Abakumov on the occasion of his 70th birthday. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1853–1855, September, 2007.     

Scaling factors for carbon NMR chemical shifts obtained from DFT B3LYP calculations

A linear scaling of the calculated chemical shifts is used in order to improve the accuracy of the DFT predicted ¹³C NMR chemical shifts. The widely applied method of GIAO B3LYP/6-311+G(2d,p) using the B3LYP/6-31G(d) optimized geometries is chosen, which allows cost-effective calculations of the ¹³C chemical shifts in the molecular systems with 100 and more atoms. A set of 27 ¹³C NMR chemical shifts determined experimentally for 22 simple molecules with various functional groups is used in order to determine scaling factors for reproducing experimentally measured values of ¹³C chemical shifts. The results show that the use of a simple relationship (δ_scalc = 0.95 δ_calc + 0.30, where δ_calc and δ_scalc are the calculated and the linearly scaled values of the ¹³C chemical shifts, respectively) allows to achieve a three-fold improvement in mean absolute deviations for 27 chemical shifts considered. To test the universal applicability of the scaling factors derived, we have used complex organic molecules such as taxol and a steroid to demonstrate the significantly improved accuracy of the DFT predicted chemical shifts. This approach also outperforms the recently recommended usage of the Hartree-Fock optimized geometries for the GIAO B3LYP/6-311+G(2d,p) calculations of the ¹³C chemical shifts.     

Torsion angle relationship of the 17O NMR chemical shift in α,β‐unsaturated carbonyl compounds

The torsion angle effect on the isotropic shielding of ¹⁷O nucleus in α,β‐unsaturated carbonyl groups is studied by means of density functional theory (DFT) calculations using a polarizable continuum model (PCM) for the solvent, employing the PBE0 functional together with the 6‐311G(d,p) basis set for geometry optimization, and the 6‐311+G(2d,p) basis set for calculating the NMR shielding with the gauge‐including atomic orbitals (GIAO) method. This study adds new information on the sensitivity of the ¹⁷O nucleus to conformational changes, revealing a strong dependence of the ¹⁷O NMR chemical shift on the dihedral angle between the carbonyl and the vinyl moiety in all studied compounds; remarkable differences are observed with the data reported for α‐diketones. Copyright © 2009 John Wiley & Sons, Ltd.     

On the accuracy of the GIAO‐DFT calculation of 15N NMR chemical shifts of the nitrogen‐containing heterocycles – a gateway to better agreement with experiment at lower computational cost

The main factors affecting the accuracy and computational cost of the gauge‐independent atomic orbital density functional theory (GIAO‐DFT) calculation of ¹⁵N NMR chemical shifts in the representative series of key nitrogen‐containing heterocycles – azoles and azines – have been systematically analyzed. In the calculation of ¹⁵N NMR chemical shifts, the best result has been achieved with the KT3 functional used in combination with Jensen's pcS‐3 basis set (GIAO‐DFT‐KT3/pcS‐3) resulting in the value of mean absolute error as small as 5 ppm for a range exceeding 270 ppm in a benchmark series of 23 compounds with an overall number of 41 different ¹⁵N NMR chemical shifts. Another essential finding is that basically, the application of the locally dense basis set approach is justified in the calculation of ¹⁵N NMR chemical shifts within the 3–4 ppm error that results in a dramatic decrease in computational cost. Based on the present data, we recommend GIAO‐DFT‐KT3/pcS‐3//pc‐2 as one of the most effective locally dense basis set schemes for the calculation of ¹⁵N NMR chemical shifts. Copyright © 2014 John Wiley & Sons, Ltd.     

<Superscript>13</Superscript>C NMR and mass spectrometry of soil organic matter

Liquid state, high resolution ¹³C NMR spectroscopy and mass spectrometry were used to study the composition and structure of soil organic matter (SOM) using soil extracts from two long-term experiments at the Rothamsted Experimental Station. Both one- and two-dimensional NMR techniques were applied. ¹³C NMR sub-spectra of the CH _n (n=0...3) groups, obtained by the Distortionless Enhancement by Polarisation Transfer (DEPT) technique, were used for the elucidation of the qualitative and quantitative composition of humic and fulvic acids in the soils. The chemical structure of SOM was further analysed at the molecular level through Fast Atom Bombardment Mass Spectrometry (FABMS) and Gas Chromatography-Mass Spectrometry (GC/MS). Humic and fulvic extract results were not only compared to each other, but also to the solid state ¹³C NMR results for the complete soil sample.     

Experimental and theoretical study of <Superscript>13</Superscript>C shielding tensors in new-style molybdenum complex

¹³C 2D-PASS spectra of two new cis-dioxo catecholatomolybdenum complexes (NH₂CH₂NH₂CHCH₂)₂(H⁺)₃[Mo^vO ₂(C₆H₄O₂)₂] and (NH₂CH₂CH₂CH₂NH₂)₂(H⁺)₃[Mo^(v)O₂ (C₂H₂O₂)₂] have been obtained by solid-state nuclear magnetic resonance (NMR), in which the spinning sidebands were well-separated. The principal components of the ¹³C shielding tensors were extracted by theoretically fitting the intensities of ¹³C spinning sidebands. The effects of counter cations on ¹³C chemical shift isotropy and shielding tensor of cis-dioxo catecholatomolybdenum complex anion [Mo ^(v)O₂(C₆H₄O₂)₂]³⁻ were studied, comparing the ¹³C CSA of those carbon sites in complex anions with that of the counter cations. Based on the known structure of the molybdenum complex crystal, theoretical values of ¹³C shielding tensors were calculated by the ainitio GIAO method, in comparison with the experimental results.     

Calculation of <Superscript>15</Superscript>N NMR chemical shifts of amines in the framework of the density functional theory

The ¹⁵N NMR magnetic shielding constants (followed by recalculation into chemical shifts) in a representative series of amines were calculated in the framework of the density functional theory. The results were compared with experiment. The accuracy factors of this calculation (functional, basis set, solvent effects, and multistandard) were studied. Taking into account all the above factors leads to a noticeable decrease in the average absolute error in the calculation of the ¹⁵N NMR chemical shifts (from 13 to 4 ppm) in a range of their changing in the studies series of compounds of ～60 ppm (which is 6—7% in relative units).     

Hammett constants and NMR shifts of α-acyloxy carboxamide derivatives

Geometrical structures, Hammett constants, ¹H and ¹³C chemical shift values, molecular electrostatic potential maps, and several thermodynamic parameters of α-acyloxy carboxamide derivatives (4a–o) were calculated using HF and DFT/B3LYP methods with 6-31G(d) basis set. The optimized structures were compared with analogous compound. The ¹H and ¹³C NMR shielding tensors were computed with the Gauge-Independent Atomic Orbital (GIAO) method. Comparison of the experimental ¹H and ¹³C NMR chemical shifts of 4a–o molecules with the theoretical data indicates good agreement.     

DFT‐GIAO 1H and 13C NMR prediction of chemical shifts for the configurational assignment of 6β‐hydroxyhyoscyamine diastereoisomers

¹H and ¹³C NMR chemical shift calculations using the density functional theory–gauge including/invariant atomic orbitals (DFT–GIAO) approximation at the B3LYP/6‐311G++(d,p) level of theory have been used to assign both natural diastereoisomers of 6β‐hydroxyhyoscyamine. The theoretical chemical shifts of the ¹H and ¹³C atoms in both isomers were calculated using a previously determined conformational distribution, and the theoretical and experimental values were cross‐compared. For protons, the obtained average absolute differences and root mean square (rms) errors for each comparison showed that the experimental chemical shifts of dextrorotatory and levorotatory 6β‐hydroxyhyoscyamines correlated well with the theoretical values calculated for the (3R,6R,2′S) and (3S,6S,2′S) configurations, respectively, whereas for ¹³C atoms the calculations were unable to differentiate between isomers. The nature of the relatively large chemical shift differences observed in nuclei that share similar chemical environments between isomers was asserted from the same calculations. It is shown that the anisotropic effect of the phenyl group in the tropic ester moiety, positioned under the tropane ring, has a larger shielding effect over one ring side than over the other one. Copyright © 2009 John Wiley & Sons, Ltd.     

Comparison of GIAO and CSGT for calculating 13C and 15N nuclear magnetic resonance chemical shifts of substituent neutral 5‐aminotetrazole and 5‐nitrotetrazole compounds

The comparison of the gauge‐including atomic orbital (GIAO) and the continuous set of gauge transformation methods for calculating nuclear magnetic chemical shifts (CSs) mainly at density functional levels of theory are presented. Isotropic ¹³ C and ¹⁵ N magnetic CS for 14 compounds of tetrazoles are reported. Compared with establishing a convenient and consistent protocol to be employed for confirming the experimental ¹³ C and ¹⁵ N NMR spectra of tetrazole compounds, different combinations of functionals and basis sets were considered. The most reliable results were obtained at GIAO/B3LYP/aug‐cc‐pVDZ with integral equation formulation for the polarizable continuum model (PCM), which has the smallest root mean square errors and can be used to calculate ¹³ C and ¹⁵ N NMR CS with a very high accuracy for tetrazoles. These results show that the accurately calculated ¹⁵N NMR CS of tetrazoles could be used for the evaluation of the intrinsic relationship between structure and explosive properties. Copyright © 2012 John Wiley & Sons, Ltd.