Insight into the structural characteristics of core-links and flat-aluminum tridecamers: a density functional theory study

The structures of core-links Al(13) (C-Al(13)) and flat-Al(13) (F-Al(13)) complexes in aqueous solution have been investigated using density functional theory (DFT) at the level of B3LYP/6-31G(d). The present work focuses on the following three aspects: (1) C-Al(13)(9+) was optimized with the consideration of solvent effect and the (27)Al NMR chemical shifts using Hartree Fock GIAO and B3LYP GIAO methods were computed respectively; (2) the optimization of F-Al(13)(15+) was also performed and the (27)Al NMR chemical shifts were obtained using the same methods as above; (3) the structural parameters of a series of typical aluminum species (Al(3+), AlOH(2+), AlF(2+), Al(2)(4+), Al(6)(6+), K-Al(13)(7+), C-Al(13)(9+) and F-Al(13)(15+)) were compared.     

Prediction of the 13C NMR Chemical Shifts of Fluorenone Analogues by the GIAO Method

After the geometry optimization at B3LYP/6-31+G(d,p) level,the NMR calcula-tions of a series of fluorenone analogues have been carried out by GIAO method at HF/6-31+G(d) level and B3LYP/6-311G+(2d,p) level,respectively.The 13C NMR chemical shifts calculated at HF/6-31+G(d) level show better agreement with the observed values.By a series of linear correction equations (δpred=a + bδcalc),accurate prediction of 13C chemical shifts was achieved for the new fluorenone compound.The linear correlation of δpred with δexptl is excellent,and the square of correlation coefficient,r2,is up to 0.994.The maximum absolute difference between δpred and δexptl,Δδ,is 4.6 ppm,and the root-mean-square error between δpred and δexptl is only 2.6 ppm.     

NMR spectra of some reduced symmetry peripheral fused-ring-substituted phthalocyanines: density functional calculations

Chemical shifts of some reduced symmetry peripheral fused-ring-substituted phthalocyanines, namely Zn3B1N, Zncis2B2N, Zntrans2B2N, Zn1B3N and Zn3B0N, have been calculated at density functional B3LYP level using the gauge-independent atomic orbital (GIAO) method. The geometries were optimized using the 6-31G(d) basis set and the following NMR calculations were performed using 6-31G(d) and 6-311G(d,p) basis sets, respectively. The calculated NMR shielding tensors and chemical shifts are compared with previous experimental results. The chemical shifts are assigned according to the calculated data and satisfying results are obtained. The NMR shielding tensor simulation of Zn3B0N has been raised as a significant theoretical topic.     

Structural elucidation of nitro-substituted five-membered aromatic heterocycles utilizing GIAO DFT calculations

The GIAO (Gauge Including Atomic Orbitals) DFT (Density Functional Theory) method is applied at the B3LYP/6-31+G(d,p)//B3LYP/6-31+G(d), B3LYP/6-311++G(d,p)//B3LYP/6-31+G(d), B3LYP/6-311+G (2d,p)//B3LYP/6-31+G(d) and B3LYP/6-311++G(d,p)//B3LYP/6-311++G(d,p) levels of theory for the calculation of proton and carbon chemicals shifts and coupling constants for 25 nitro-substituted five-membered heterocycles. Difference (1D NOE) spectra in combination with long-range gHMBC experiments were used as tools for the structural elucidation of nitro-substituted five-membered heterocycles. The assigned NMR data (chemical shifts and coupling constants) for all compounds were found to be in good agreement with theoretical calculations using the GIAO DFT method. The magnitudes of one-bond (1JCH) and long-range (nJCH, n>1) coupling constants were utilized for unambiguous differentiation between regioisomers of nitro-substituted five-membered heterocycles.     

Beta-silyl-substituted silaadamantyl,silabicyclo[2.2.2]octyl,silanorbornyl, and 1-silacyclohexyl cations. A theoretical (DFT and GIAO NMR) study

Parent 1-silaadamant-1-yl (1+) and a series of mono-beta-silyl-substituted- (2-Me+, 2-F+, 2-Cl+, 2-Br+), bis-beta-silyl-substituted- (3-Me+), and tris-beta-silyl-substituted (4-Me+)-1-silaadamant-1-yl cations were studied by the DFT method at the B3LYP/6-31G(d,p) level and by GIAO NMR at the B3LYP/ 6-31G(d,p)//B3LYP/6-31G(d,p) level. The geometries, relative energies, NMR chemical shifts, and charge distribution in the bridgehead silylium ions are discussed and compared. The magnitude of the beta-silyl effect (the Si-C-Si+ hyperconjugation) is gauged as a function of structure. Related model studies on the silabicyclo[2.2.2]octyl (5+, 6+, 5a+, and 6a+), silanorbornyl (7+ and 8+), and silacyclohexyl cations (9+ and 10+) were carried out in which the effect of beta-silyl substitution on geometry, stability, and NMR chemical shifts was probed. The acyclic model Me3Si-CH2-Si+(Me)2 (11+) was used to gauge the influence of the twist angle between the p-orbital at Si+ and the C-Si bond on relative stability and on the changes in the 29Si NMR chemical shifts. Finally, interaction of 1+ with H2O and MeOH and 2-Me+ with H2O was also examined. The resulting optimized structures (12+, 13+, and 14+) and the computed NMR chemical shifts are most compatible with the formation of silaoxonium ions.     

NMR spectra of free-base porphine, porphyrazine, phthalocyanine and naphthalocyanine as well as their metal complexes: density functional calculations

Nuclear magnetic shielding tensors of porphine have been calculated at density functional B3LYP and PBE level using the gauge independent atomic orbital (GIAO) method. The geometries used were optimized using the 6-31G(d) basis set and the NMR calculations were performed using 6-31G(d) and 6-311G(d,p) basis sets, respectively. The calculated NMR shielding tensors and chemical shifts of porphine are compared with previous calculations as well as experimental data and satisfying results are obtained. Further NMR calculations are extended to metal-free and metallo-porphyrazine, -phthalocyanine, and -naphthalocyanine for the first time and the results are compared with experimental data available. The chemical shifts of the atoms in these compounds are assigned according to the experimental data available.     

Prediction of the ~(13)C NMR Chemical Shifts of 9,10-Dihydrophenanthrene Analogues by the GIAO Method

After the geometry optimizations at the B3LYP/6-31+G(d,p) level, the NMR calculations of a series of 9,10-dihydrophenanthrene analogues have been carried out by GIAO method at the HF/6-31+G(d) level. The calculated 13C NMR chemical shifts are in agreement with the observed values. By a series of linear correlation equations (δpred = a + bδcal.c) of the 13C chemical shifts, accurate prediction of 13C chemical shifts was achieved for the new 9,10- dihydrophenanthrene compound, for which the predicted 13C NMR chemical shifts are in quite good agreement with the experimental values. The linear correlation between δpred and δexptl is excellent, and the square of correlation coefficient, r2, is up to 0.9973. The maximum absolute difference between δpred and δexptl, Δδ, is 4.5 ppm, and the rms error between δpred and δexptl is 2.55 ppm. In the meantime, according to the theoretical predicted result, we could confirm that the new 9,10-dihydrophenanthrene analogue is erianthridin (2,7-dihydroxy-3,4-dimethoxy-9,10-dihydro-phenanthrene).     

Theoretical investigation on multinuclear NMR chemical shifts of some tris(trifluoromethyl)boron complexes

Tris(trifluoromethyl)boron complexes have unusual properties and may find applications in many fields of chemistry, biology, and physics. To gain insight into their NMR properties, the isotropic ¹¹B, ¹³C, and ¹⁹F NMR chemical shifts of a series of tris(trifluoromethyl)boron complexes were systematically studied using the gauge‐included atomic orbitals (GIAO) method at the levels of B3LYP/6‐31 + G(d,p)//B3LYP/6‐31G* and B3LYP/6‐311 + G(d,p)//B3LYP/6‐311 + G(d,p). Solvent effects were taken into account by polarizable continuum models (PCM). The calculated results were compared with the experimental values. The reason that the structurally inequivalent fluorine atoms in a specific species give a same chemical shift in experimental measurements is attributed to the fast rotation of CF₃ group around the B? C(F₃) bond because of the low energy barrier. The calculated ¹¹B, ¹³C(F₃), and ¹⁹F chemical shifts are in good agreement with the experimental measurements, while the deviations of calculated ¹³C(X, X = O, N) chemical shifts are slightly large. For the latter, the average absolute deviations of the results from B3LYP/6‐311 + G(d,p)//B3LYP/6‐311 + G(d,p) are smaller than those from B3LYP/6‐31 + G(d,p)//B3LYP/6‐31G*, and the inclusion of PCM reduces the deviation values. The calculated ¹⁹F and ¹¹B chemical shieldings of (CF₃)₃BCO are greatly dependent on the optimized structures, while the influence of structural parameters on the calculated ¹³C chemical shieldings is minor. Copyright © 2009 John Wiley & Sons, Ltd.     

Quantum vs. classical models of the nitro group for proton chemical shift calculations and conformational analysis

A model based on classical concepts is derived to describe the effect of the nitro group on proton chemical shifts. The calculated chemical shifts are then compared to ab initio (GIAO) calculated chemical shifts. The accuracy of the two models is assessed using proton chemical shifts of a set of rigid organic nitro compounds that are fully assigned in CDCl3 at 700 MHz. The two methods are then used to evaluate the accuracy of different popular post-SCF methods (B3LYP and MP2) and molecular mechanics methods (MMX and MMFF94) in calculating the molecular structure of a set of sterically crowded nitro aromatic compounds. Both models perform well on the rigid molecules used as a test set, although when using the GIAO method a general overestimation of the deshielding of protons near the nitro group is observed. The analysis of the sterically crowded molecules shows that the very popular B3LYP/6-31G(d,p) method produces very poor twist angles for these, and that using a larger basis set [6-311++G(2d,p)] gives much more reasonable results. The MP2 calculations, on the other hand, overestimate the twist angles, which for these compounds compensates for the deshielding effect generally observed for protons near electronegative atoms when using the GIAO method at the B3LYP/6-311++G(2d,p) level. The most accurate results are found when the structures are calculated using B3LYP/6-311++G(2d,p) level of theory, and the chemical shifts are calculated using the CHARGE program based on classical models.     

一种天然产物Wangzaozin A的细胞毒活性

从总序香茶菜Isodon racemosa (Hemsl) Hara植物中分离得到一个对人类肿瘤细胞Bel-7402和HD-8910具有毒活性的对映-贝壳衫烷型二萜Wangzaozin A化合物(1). 应用密度泛函理论(DFT)B3LYP方法, 对该分子的几何构型进行优化, 结果表明用B3LYP/6-31G(d)优化的几何参数与它的X射线衍射结构参数基本一致. 在优化的几何构型基础上, 采用规范不变原子轨道(GIAO)法, 在B3LYP理论水平分别用6-31G(d), 6-31G(d,p), 6-31+G(d,p)和6-31++G(d,p)基组进行核磁共振(NMR)化学位移值计算, 预测的1H和13CNMR化学位移值与实验值吻合; 统计误差分析表明, 用B3LYP/6-31G(d)优化的分子构型接近实际的分子构型. 因此, DFT方法适用这一类型化合物的构型和NMR参数进行预测. 在几何优化的基础上, 在B3LYP/6-31G(d)水平上, 对Wangzaozin A分子的静电位(MEP)进行理论计算. MEP三维图表明, 在Wangzaozin A分子中α-亚甲基环戊酮的羰基和羟基附近出现富电子区域(负电位), 起着供电子作用, 与受体的正电子区域结合. 这些结果从理论上支持了α-亚甲基环戊酮结构是一种抗肿瘤活性中心的看法.     

A theoretical study of inversion barriers and NMR chemical shifts of 3-pyrazolines (2,3-dihydro-1H-pyrazoles)

A rather neglected family of heterocyclic compounds, the 3-pyrazolines or 2,3-dihydro-1H-pyrazoles, has been studied theoretically at the B3LYP/6–311++G(d,p) level to obtain geometries and energies and at the GIAO/B3LYP/6–311++G(d,p) level for NMR chemical shifts. The calculated barriers of inversion of the N-substituents reproduce adequately the scarce experimental data. The calculated ¹H and ¹³C chemical shifts are consistent with those reported in the literature. A combination of both results, geometries, and ¹³C chemical shifts, shed light on the conformation of N-phenyl groups.     

A density functional theoretical studies on the structures and aromaticities of （CH）n（BCO）6-n （n =0-6）

Density functional theoretical calculations have been made on the electronic structure of （CH）n（BCO）6-n（n = 0-6） at B3LYP/6- 311 ＋ G（d） level. The nuclear-independent chemical shifts （NICS） values calculated using the gauge-including atomic orbitals （GIAO） method were used to assess on the aromaticities of these molecules. The results shows that （CH）n（BCO）6n（n = 0-6） species are aromatic.     

NMR spectra of salicylohydroxamic acid in DMSO-d6 solution: a DFT study

The ¹H, ¹³C and ¹H, ¹³C COSY NMR spectra of salicylohydroxamic acid (sha) were measured in DMSO-d₆ solution. The B3LYP GIAO method with the 6-311++G(d,p) basis set was chosen to reproduce the experimental spectra. All possible zusammen and entgegen conformers of monomeric sha were computed. After geometry optimisation (B3LYP/6-311++G(d,p)) only nine independent models of the molecule were shown to be stable. Additionally, the NMR chemical shifts of the Onsager model of the most stable monomer were calculated. The computed chemical shifts for the labile protons for all aforementioned geometries meaningfully underestimated experimental results suggesting the existence of the H-bonded structure of sha in DMSO solution. The most probable two dimeric structures along with two solvent-bounded aggregates were subsequently calculated at the same level of theory. The best agreement was obtained for sha H-bonded with two DMSO molecules (confirmed by the absence of concentration effect). The relative error not exceeding 10 and 4% for chemical shifts in ¹H and ¹³C NMR spectra of sha–(DMSO)₂, respectively, showed that the applied method with the B3LYP/6-311++G(d,p) basis set was efficient to predict the NMR shifts of a compound with strong H-bonds. Thus, this allows to assign properly NMR resonances to specific structure formed in DMSO solution.     

Molecular structure, IR and NMR spectra of 2,6 distyrylpyridine by density functional theory and ab initio Hartree-Fock calculations

Vibrational frequencies and gauge including atomic orbital (GIAO) 13C NMR and 1H NMR chemical shift values of 2,6 distyrylpyridine (C21H17N) in the ground state have been calculated by using the Hartree-Fock (HF) and density functional method (B3LYP) with 6-31G(d) basis set. These methods are proposed as a tool to be applied in the structural characterization of 2,6 distyrylpyridine (C21H17N). The title compound has C2v point group, thus providing useful support in the interpretation of experimental IR data. In addition, obtained results were related to the linear correlation plot of experimental 13C NMR, 1H NMR chemical shifts values and IR data.     

Encapsulating beryllium – Synthesis,characterisation and modelling of a chiral binaphthyldiimine-Be(II) complex

Beryllium has been successfully incorporated into a naphthalene containing Schiff base ligand. Evidence from ⁹Be and ¹H NMR data and model compounds indicate that the ligand completely encapsulates the beryllium cation via tetra-dentate tetrahedral coordination using both phenol and imine donors. Calculated ⁹Be NMR data at the B3LYP/6-311G+(2d,p) DFT level of theory is in agreement with this conclusion.     

Quantum chemical and nuclear magnetic resonance spectral studies on molecular properties and electronic structure of berberine and berberrubine

The structural and electronic properties of berberine and berberrubine have been studied extensively using density functional theory (DFT) employing B3LYP exchange correlation. The geometries of these molecules have been fully optimized at the B3LYP/6-311G** level. The chemical shift of 1H and 13C resonances in NMR spectra of these molecules have been calculated using the gauge invariant atomic model (GIAO) method as implemented in Gaussian 98. One- and two-dimensional HSQC (1H-13C), HMBC (1H-13C) and ROESY (1H-1H) spectra were recorded at 500 MHz for the berberine molecule in D(2)O solution. All proton and carbon resonances were unambiguously assigned, and inter-proton distances obtained from ten observed NOE contacts. A restrained molecular dynamics (RMD) approach was used to get the optimized solution structure of berberine. The structure of berberine and berberrubine molecules was also obtained using the ROESY data available in literature. Comparison of the calculated NMR chemical shifts with the experimental values revealed that DFT methods produce very good results for both proton and carbon chemical shifts. The importance of the basis sets to the calculated NMR parameters is discussed. It has been found that calculated structure and chemical shifts in the gas phase predicted with B3LYP/6-311G** are in very good agreement with the present experimental data and the measured values reported earlier.     

双氮桥联1,10-菲咯啉大环化合物分子构型的从头算研究

应用规范不变原子轨道法(GIAO)在RHF/6-31G**和B3LYP/6-31G**水平上计算了质子化双氮桥联1,10-菲咯啉大环化合物(H4HAPP2+)C2h和C2h构型的1HNMR,并用TDDFT法计算了H4HAPP2+电子光谱.结果表明,B3LYP/6-31G*优化的C2h构型为较优构型,经谐振频率验证无虚频,C2h构型是H4HAPP2+合理的对称性构型.     

Spectroscopic, electronic structure and natural bond orbital analysis of o-fluoronitrobenzene and p-fluoronitrobenzene: a comparative study

Experimental FTIR, FT-Raman and FT-NMR spectroscopic studies of o-fluoronitrobenzene and p-fluoronitrobenzene have been carried out. A detailed quantum chemical calculations have been performed using DFT/B3LYP method with 6-311++G** and 6-31G** basis sets. Complete vibrational analyses of the compounds were performed. The temperature dependence of thermodynamic properties has been analysed. The atomic charges, electronic exchange interaction and charge delocalisation of the molecule have been performed by natural bond orbital (NBO) analysis. Molecular electrostatic surface potential (MESP), total electron density distribution and frontier molecular orbitals (FMOs) are constructed at B3LYP/6-311++G** level to understand the electronic properties. The charge density distribution and site of chemical reactivity of the molecules have been obtained by mapping electron density isosurface with electrostatic potential surfaces (ESP). The electronic properties, HOMO and LUMO energies were measured by time-dependent TD-DFT approach. (1)H and (13)C NMR spectra were recorded and (1)H and (13)C nuclear magnetic resonance chemical shifts of the molecule were calculated. The (1)H and (13)C nuclear magnetic resonance (NMR) chemical shifts of the molecules in chloroform solvent and in gas phase were calculated by using the Gauge-Independent Atomic Orbital (GIAO) method and are found to be in good agreement with experimental values. The theoretical parameters obtained at B3LYP levels have been compared with the experimental values.     

Complete 1H, 13C and 15N NMR assignment of tirapazamine and related 1,2,4-benzotriazine N-oxides

1H, 13C and 15N NMR measurements (1D and 2D including 1H--15N gs-HMBC) have been carried out on 3-amino-1, 2,4-benzotriazine and a series of N-oxides and complete assignments established. N-Oxidation at any position resulted in large upfield shifts of the corresponding N-1 and N-2 resonances and downfield shifts for N-4 with the exception of the 3-amino-1,2,4-benzotriazine 1-oxide in which a small upfield shift of N-4 was observed. Density functional GIAO calculations of the 15N and 13C chemical shifts [B3LYP/6-31G(d)//B3LYP/6-311+G(2d,p)] gave good agreement with experimental values confirming the assignments. The combination of 13C and 15N NMR provides an unambiguous method for assigning the 1H and 13C resonances of N-oxides of 1,2,4-benzotriazines.     

Iminopropadienones R–NCCCO and carbon suboxide, C3O2. Theoretical and experimental C NMR spectra

The ¹³C NMR data of five iminopropadienones R–NCCCO as well as carbon suboxide, C₃O₂, have been examined theoretically and experimentally. The best theoretical results were obtained using the GIAO/B3LYP/6-31+G**//MP2/6-31G* level of theory, which reproduces the chemical shifts of the iminopropadienone substituents extremely well while underestimating those of the cumulenic carbons by 5–10 ppm. The computationally faster GIAO/HF/6-31+G**//B3LYP/6-31G* level is also adequate.