1H NMR analysis of O‐methyl‐inositol isomers: a joint experimental and theoretical study

Density functional theory (DFT) calculations of ¹H NMR chemical shifts for l ‐quebrachitol isomers were performed using the B3LYP functional employing the 6‐31G(d,p) and 6‐311 + G(2d,p) basis sets. The effect of the solvent on the B3LYP‐calculated NMR spectrum was accounted for using the polarizable continuum model. Comparison is made with experimental ¹H NMR spectroscopic data, which shed light on the average uncertainty present in DFT calculations of chemical shifts and showed that the best match between experimental and theoretical B3LYP ¹H NMR profiles is a good strategy to assign the molecular structure present in the sample handled in the experimental measurements. Among four plausible O‐methyl‐inositol isomers, the l ‐quebrachitol 2a structure was unambiguously assigned based only on the comparative analysis of experimental and theoretical ¹H NMR chemical shift data. The B3LYP infrared (IR) spectrum was also calculated for the four isomers and compared with the experimental data, with analysis of the theoretical IR profiles corroborating assignment of the 2a structure. Therefore, it is confirmed in this study that a combined experimental/DFT spectroscopic investigation is a powerful tool in structural/conformational analysis studies. Copyright © 2012 John Wiley & Sons, Ltd.     

Ethynyl-bridged porphyrin-corrole dyads and triads: Synthesis,properties and DFT calculations

Ethynyl-bridged porphyrin-corrole dyads and triads were synthesized by using Pd(0) mediated coupling reactions and their structures were characterized by NMR, FT-IR, UV/Vis and fluorescence techniques. Besides spectroscopic techniques, computational studies at B3LYP/6-311G(d,p) level of DFT were also used to elucidate the minimum energy geometries and the molecular orbital characteristics of the new dyads and triads. DFT calculations pointed out the presence of charge separated donor-acceptor property between macrocycles of dyads and triads, and the emission studies indicated an excited state interaction between macrocycles, and energy transfer from the porphyrin to the corrole unit.     

Spectroscopic and structural elucidation of merocyanine dye 2,5-[1-metyl-4-[2-(4-hydroxyphenyl)ethenyl)]piridinium]-hexane tetraphenylborate aggregation processes

Structural and spectroscopic elucidation of merocyanine dye, 2,5-[1-metyl-4-[2-(4-hydroxyphenyl)ethenyl)]piridinium]-hexane tetraphenylborate, is performed in gas and condense phase by means of solution and solid-state conventional and linear-polarized IR-spectroscopy of oriented colloids in nematic liquid crystal suspension, UV-vis and fluorescence methods, HPLC MS/MS tandem and ESI mass spectrometry, (1)H, (13)C and (1)H-(1)H COSY NMR, TGV and DSC methods. Quantum chemical DFT calculations are performed for structural optimization and spectroscopic properties prediction.     

The structure elucidation of isomalyngamide K from the marine cyanobacterium Lyngbya majuscula by experimental and DFT computational methods

The 2Z-isomer of malyngamide K has been isolated along with the known compounds malyngamide C, deoxy-C and K, and characterized from a Papua New Guinea field collection of the cyanobacterium Lyngbya majuscula. The planar structure was deduced by 1D and 2D NMR spectroscopic and mass spectral data interpretation. The absolute configurations were determined on the basis of spectroscopic techniques, chemical degradation and DFT theoretical calculations.     

Addressing the stereochemistry of complex organic molecules by density functional theory-NMR: vannusal B in retrospective

We have employed density functional theory (DFT) protocols to calculate the NMR properties of the vannusals, a class of natural products whose structures have been the subject of recent investigations. The originally assigned structure of vannusal B was revised after a long synthetic journey which generated a series of closely related diastereomers. In this work we show how DFT calculations based on density functionals and basis sets designed for the prediction of NMR spectra (M06/pcS-2 level of theory) can be used to reproduce the observed parameters, thereby offering to the synthetic chemist a useful tool to discard or accept putative structures of unknown organic molecules.     

Synthesis,structural investigations,and DFT calculations on novel 3-(1,3-dioxan-2-yl)-10-methyl-10H-phenothiazine derivatives with fluorescence properties

Comparison studies on the acetalization of 10-methyl-10H-phenothiazine-carbaldehyde with 1,3-propanediol, or 2-substituted-1,3-propanediols, under conventional versus microwave assisted conditions and standard organic solvents versus water, were performed as an attempt toward more environmentally benign synthetic methods. New 3-(1,3-dioxan-2-yl)-10-methyl-10H-phenothiazine derivatives were obtained in high yields by azeotropic distillation of water and in moderate yields by microwave assisted synthesis in different solvents, including water under superheated conditions. The solvent influence upon stabilizing the key intermediates involved in the acetalization mechanism was assumed based on DFT calculations, which indicated a favorable enthalpy profile in water solvent. Structural investigations of the new compounds based on spectroscopic methods (NMR, FT-IR, UV–vis, and MS), were completed with molecular mechanics and semi-empirical DFT calculations, which supported an anancomeric chair conformation of the 1,3-dioxane ring with the phenothiazine substituent in the equatorial position and possible free rotation about the single bond linking the two heterocyclic units. The new compounds display daylight fluorescence characterized by remarkably large Stokes shifts determined by LE spectroscopy.     

Meso-Carbon Atom Nucleophilic Attack Susceptibility in the Sterically Strained Antiaromatic Bis-BODIPY Macrocycle and Extended Electron-Deficient BODIPY Precursor**

A sterically strained 32π-electron antiaromatic bis-BODIPY macrocycle in which two BODIPY fragments are linked by p-divinylbenzene groups was prepared and characterized. Unlike regular BODIPYs, the fluorescence in this macrocycle is quenched. The broad signals in the NMR spectra of the macrocycle were explained by the vibronic freedom of the p-divinylbenzene fragments. The possible diradicaloid nature of the macrocycle was excluded on the basis of variable-temperature EPR spectra in solution and in solid state, which is indicative of its closed-shell quinoidal structure. The meso-C−H bond in the macrocycle and its precursor BODIPY dialdehyde 3 forms a weak hydrogen bond with THF and is susceptible for the nucleophilic attack by organic amines and cyanide anion. The reaction products of such a nucleophilic attack have meso-sp³ carbon atoms and were characterized by NMR, mass spectrometry and, in one case, X-ray crystallography. Unlike the initial bis-BODIPY macrocycle, the adducts have strong fluorescence in the 400 nm region. The electronic structure and spectroscopic properties of new chromophores were probed by density functional theory (DFT) and time-dependent DFT (TDDFT) calculations and correlate well with the experimental data.     

Spectroscopy and photochemical reactivity of cyclooctadiene platinum complexes

The spectroscopic and photochemical properties of a series of 1,5-cyclooctadiene platinum complexes of the type [(COD)Pt(R)₂] (R=alkyl, alkynyl, or aryl) were examined. The observed photoreactivity is wavelength dependent and observed reaction rates correlate with the donor-strength of the R group. For strongly donating substituents like adamantylmethyl, benzyl or iso-propyl rates were increased by factors of about 100 for a given model reaction compared to the dimethyl derivative. The products were determined by NMR spectroscopy. Different reaction pathways were found depending on the substituents R. Theoretical calculations (DFT) on the electronic structure revealed the character of optical transitions and excited states.     

Three‐Component Reactions with (S)‐Methyl Pyroglutamate: An Efficient Way to Diversely Substituted Asymmetric Amidocyclohexenes

Chiral N‐dienyl lactams are crucial building blocks for the synthesis of complex organic compounds. However, their generation is rather challenging. This paper reports the novel one‐pot reaction of (S)‐methyl pyroglutamate as the a mide component with different a ldehydes and d ienophiles (AAD reaction) to give novel chiral 1‐amido‐2‐cyclohexenes. The corresponding N‐dienyl lactams generated in situ undergo subsequent Diels–Alder reactions in good yield and diastereoselectivity. The scope and limitations of the three‐component protocol were investigated. X‐ray and NMR spectroscopic analysis of the products as well as DFT calculations of the intermediates were also performed to explain the observed stereoselectivity and structural features.     

A facile approach to a d4 RuN: moiety

Replacement of chloride in (PNP)RuCl, PNP = (tBu2PCH2SiMe2)2N, by Me3SiN3 gives a pre-redox adduct that, already at -30 degrees C, releases N2 to produce the mononuclear nonplanar Ru(IV) nitride (PNP)RuN, characterized by spectroscopic and X-ray methods. DFT calculations show the planar structure to be only 1.6 kcal/mol less stable, which explains the time-averaged simplicity of the 1H NMR spectrum, as well as the large vibrational amplitude of the nitride ligand.     

1,2,3]Triazolo[1,5-a]pyridyl phosphines reflecting the influence of phosphorus lone pair orientation on spectroscopic properties

A series of new triazolopyridine-based phosphines has been prepared. These compounds revealed unexpected spectroscopic patterns. In particular, the NMR spectra are highly dependent on the relative conformational preference of the phosphine substituent at C7. Here, we report on their complete NMR analysis, X-ray structures and DFT calculations that confirm the particular arrangement of the phosphorus lone pair orbital related to the substituent pattern of the chosen phosphine.     

Experimental and Theoretical Study of the Reactivity of Gold Nanoparticles Towards Benzimidazole‐2‐ylidene Ligands

The reactivity of benzimidazol‐2‐ylidenes with respect to gold nanoparticles (AuNPs) has been investigated using a combined experimental and computational approach. First, the grafting of benzimidazol‐2‐ylidenes bearing benzyl groups on the nitrogen atoms is described, and comparisons are made with structurally similar N‐heterocyclic carbenes (NHCs) bearing other N‐groups. Similar reactivity was observed for all NHCs, with 1) the erosion of the AuNPs under the effect of the NHC and 2) the formation of bis(NHC) gold complexes. DFT calculations were performed to investigate the modes of grafting of such ligands, to determine adsorption energies, and to rationalize the spectroscopic data. Two types of computational models were developed to describe the grafting onto large or small AuNPs, with either periodic or cluster‐type DFT calculations. Calculations of NMR parameters were performed on some of these models, and discussed in light of the experimental data.     

Evidences for Chelating Complexes of Lithium with Phenylphosphinic and Phenylphosphonic Acids: A Spectroscopic and DFT Study

Abstract

Lithium complexes were prepared with phenylphosphinic and phenylphosphonic acids. The complexes were studied in the solid state using Fourier transform infrared spectroscopy spectroscopy and in solution (methanol) using ¹H, ¹³C, and ³¹P Nuclear magnetic resonance spectroscopy (NMR) spectroscopy; the most preferred structures of the complexes were determined by density functional theory (DFT) computational method. Although methanol has a strong solvation effect on lithium ions and ligands, which causes dissociation of the complexes, significant changes of the NMR spectra of the complexes (relative to those of the free ligands) were observed. The new spectroscopic results indicate the presence of the phenylphosphinic acid tautomer (I: C₆H₅PH(?O)OH) rather than that of phenyl-phosphorous acid (II: C₆H₅P(OH)₂) in deuterated methanol showing PH/PD exchange. On the other hand, tautomer I predominates in the complex with lithium without showing PH/PD exchange. The DFT calculations predict that tautomer I is the preferred structure in the case of free ligand and lithium complex. The absence of a PH/PD exchange in the complex is due to the formation of a chelating complex, rather than of a simple salt between lithium ion and the two oxygen atoms of I, which prevent tautomerization of I into II. DFT calculations support the formation of lithium chelating complexes. The lithium ion was found to affect the spectroscopic properties of phenylphosphinic acid more dramatically than those of phenylphosphonic acid.     

The structure of the anti‐aging agent J147 used for treating Alzheimer's disease

The molecular structure of the anti‐aging agent J147 [systematic name: (E)‐N‐(2,4‐dimethylphenyl)‐2,2,2‐trifluoro‐N′‐(3‐methoxybenzylidene)acetohydrazide], C₁₈H₁₇F₃N₂O₂, has been determined at 150 K. The crystal structure corresponds to the minimum‐energy conformation in the gas phase calculated by density functional theory (DFT). 15 other conformations have been calculated and compared with the minimum, denoted 1111 . NMR spectroscopic data have been obtained and compared with those from Gauge Independent Atomic Orbital (GIAO) calculations. DFT calculations allow the reduction of the 16 possible rotamers to the four most stable (i.e. 1111 , 1112 , 1121 and 1222 ); in addition, the calculated barriers connecting these minima are low enough to permit their interconversion. Comparison of the NMR spectroscopic results, both experimental and calculated, point to the 1121 isomer being present in chloroform solution.     

Polarization-consistent versus correlation-consistent basis sets in predicting molecular and spectroscopic properties

Compared to the correlation-consistent basis sets, it is not known if polarization-consistent pc-n basis sets, which were initially developed for HF and DFT calculations, can provide a monotonic and faster convergence toward the basis-set limit for results at correlated levels as well as better accuracy for a similar number of basis functions. It is also not known whether the pc-n basis sets can compute second derivatives of energy, such as nuclear magnetic shielding tensors, efficiently. To address these questions, the pc-n (n = 1-4), cc-pVxZ, and/or aug-cc-pVxZ (x = D, T, Q, 5, and 6) basis sets were used to compute the molecular and/or spectroscopic parameters of H2, H2O, and NH3 at the RHF, B3-LYP, MP2, and/or CCSD(T) levels of theory. The results show that compared to the cc-pVxZ and/or aug-cc-pVxZ basis sets the pc-n basis sets yield faster convergence toward the basis-set limit but equivalent molecular and/or spectroscopic parameters in the basis-set limit at the RHF, DFT, MP2, and CCSD(T) levels. Because the pc-n basis sets show faster convergence, fewer basis-set functions are needed to reach the accuracy obtained with the aug-cc-pVxZ basis sets, enabling faster calculations and less computer storage space. The results also show that the pc-n basis sets, in conjunction with the "locally dense" basis-set approach, could be applied to predict accurate parameters; thus, they could be used to estimate accurate molecular or spectroscopic properties (e.g., NMR parameters) for larger systems such as the active site of enzymes.     

[Re(CO)3Cl]‐Chelation‐Mediated Electronic Coupling between Two Amine Redox Sites through the 5,5′‐Positions of 2,2′‐Bipyridine

The electronic coupling between two amine redox sites bridged through the 5,5′‐positions of the [Re(CO)₃Cl]‐chelated 2,2′‐bipyridine was studied by the electrochemical, spectroscopic, and EPR analysis. Interestingly, multiple near‐infrared bands were observed in this new organic mixed‐valent system. The results are interpreted with the aid of DFT and TDDFT calculations.     

Lattice Opening upon Bulk Reductive Covalent Functionalization of Black Phosphorus

The chemical bulk reductive covalent functionalization of thin‐layer black phosphorus (BP) using BP intercalation compounds has been developed. Through effective reductive activation, covalent functionalization of the charged BP by reaction with organic alkyl halides is achieved. Functionalization was extensively demonstrated by means of several spectroscopic techniques and DFT calculations; the products showed higher functionalization degrees than those obtained by neutral routes.     

Characterization of covalent linkages in organically functionalized MCM-41 mesoporous materials by solid-state NMR and theoretical calculations

The covalent linkages formed during functionalization of MCM-41 mesoporous molecular sieves with five chloroalkylsilanes ((EtO)3Si(CH2Cl), (MeO)3Si(CH2CH2CH2Cl), Cl3Si(CH2CH2CH3), Cl2Si(CH3)(CH2Cl) and Cl2Si(CH3)2) have been investigated using high-resolution solid-state NMR spectroscopy and DFT calculations. Structural information was obtained from 1H-13C and 1H-29Si heteronuclear (HETCOR) NMR spectra, in which high resolution in the 1H dimension was obtained by using fast MAS. The 1H-13C HETCOR results provided the assignments of 1H and 13C resonances associated with the surface functional groups. Sensitivity-enhanced 1H-29Si HETCOR spectra, acquired using Carr-Purcell-Meiboom-Gill refocusing during data acquisition, revealed the identity of 29Si sites (Qn, Tn, and Dn) and the location of functional groups relative to these sites. Optimal geometries of local environments representing the Qn, Tn and Dn resonances were calculated using molecular mechanics and ab initio methods. Subsequently, DFT calculations of 29Si, 13C, and 1H chemical shifts were performed using Gaussian 03 at the B3LYP/6-311++G(2d,2p) level. The theoretical calculations are in excellent accord with the experimental chemical shifts. This work illustrates that state-of-the-art spectroscopic and theoretical tools can be used jointly to refine the complex structures of inorganic-organic hybrid materials.