The Structure and EPR Behavior of Short Nitroxide Biradicals Containing Sulfur Atom in the Bridge

Two short nitroxide biradicals of similar composition: S(OR₆)₂ (1) and O=S(OR₆)₂ (2), where OR₆ is 1-oxyl-2,2,6,6-tetramethyl-4-oxypiperidine, have been studied by electron paramagnetic resonance spectroscopy, and X-ray structural analysis. Variations of the intramolecular electron spin exchange in the biradicals, dissolved in toluene and ethanol, as a function of temperature were characterized by changes in the isotropic ¹⁴N hyperfine splitting constant a, values of the exchange integral $ \left| J \right|, $ and compared with the X-ray structural data. Thermodynamic parameters of the conformational rearrangements were calculated. Geometry optimization and spin density distribution calculations of biradicals 1 and 2 were carried out on the DFT/UB3LYP/cc-pVdz and DFT/ROPBE/N07D levels of theory. Structural rigidity and probable differences in biradicals behavior are discussed.     

Tailored Nitroxide Radicals and Biradical Containing <Superscript>13</Superscript>C Enriched Acetylene Groups: ENDOR and DFT Investigation

A specially synthesized nitroxide biradical R₅-C≡¹³C-(p-C₆H₄)₂-¹³C≡C-R₅ (B4) and two radicals, R₅-C≡¹³CH (RCC) and R₅-C≡¹³C-C₆H₅ (RCCPh), where R₅ is 1-oxyl-2,2,5,5-tetramethyl-pyrroline group, have been studied by X- and W-band electron paramagnetic resonance (EPR) spectroscopy, and by W-band electron-nuclear double resonance (ENDOR). Spin density distribution and hyperfine splitting (hfs) constants on ¹³C atoms were experimentally determined and also calculated using ORCA 3.0.3 program package. The biradical and radicals geometries were optimized on UKS/B3LYP/cc-pVDZ level. Hfs constants were calculated using density functional theory (DFT) with PBE0 functional and N07D, and were compared with the experimental value of the hfs constant on ¹³C atoms, measured from ENDOR spectra. It is concluded that at small values of the exchange integral as J ≤ a/2 ≈ 7–8 G, the current quantum chemical approaches do not allow determining precise values of the hfs constants on the ¹³C atoms in the bridge connecting two paramagnetic nitroxide rings of the biradical.     

Behavior of Nitroxide Biradicals with Acetylene Bridges in Organic Solvents and Ionic Liquids

Intramolecular electron spin exchange (IESE) in two nitroxide biradicals, R₆–C≡C–C≡C–R₆ (1) and R₆–C≡C–p-C₆H₄–C≡C–R₆ (2), is studied as a function of temperature and solvent properties. The effect of molecular solvents and ionic liquids (ILs, [1-methyl-3-butylimidazolium]⁺[PF₆]^?, bmimPF₆, and [1-methyl-3-octylimidazolium]⁺[BF₄]^?, omimBF₄) on the IESE in magnetically diluted solutions is investigated. Changes in electron paramagnetic resonance spectra are analyzed and the thermodynamic parameters of these changes are calculated. Geometry optimization and D-tensor calculations of biradicals 1 and 2 were carried out on the DFT/UB3LYP/cc-pVdz and DFT/ROPBE/N07D levels of theory. The probable differences in biradical behavior are discussed.     

NMR and EPR Study of the Nitroxide Radical Tempo Interaction with Phenols

The 2,2,6,6-tetramethyl-I-piperidinyloxy free radical (TEMPO) was used as a probe to study the changes in hydrogen bonding between the phenolic OH group and the ON group of the radical by means of NMR and EPR. ¹³C NMR contact shifts induced by TEMPO were measured for five phenols. Formation of intermolecular hydrogen bond between a phenol and TEMPO molecule causes noticeable increase of ¹⁴N hyperfme coupling constant in the radical and appearance of negative spin density on carbon nuclei of C-OH fragment in the phenol.     

Calculations of the EPR g-tensor using unrestricted two- and four-component relativistic approaches within the HF and DFT frameworks

ABSTRACT

Approaches and programs for calculations of the EPR g-tensor in the framework of the two- and four-component methods are still very rare. There are three main reasons for this: the wider community's unawareness of the importance of second- and higher order spin–orbit effects on the g-tensor, the methodological problems associated with performing such calculations and the lack of understanding of these problems. This paper reports on the implementation of a method for calculation of the g-tensor in the framework of the relativistic unrestricted two- and four-component Hartree–Fock and density functional theory approaches based on the Kramers pair formalism. This implementation allows us to analyse problems which arise when the g-tensor is calculated via Kramers pairs in the unrestricted framework.     

Vibrational Spectra, DFT Calculations, and Assignments of the syn and the gauche Forms of Vinylphosphine

Infrared spectra (3500-600 cm(-1)) of vinylphosphine and its P-dideuterated derivative in the gas phase were recorded at 1 cm(-1) resolution. Both the infrared absorption bands of the syn and gauche conformers of the vinylphosphine were observed and assigned. The assignment was based on density functional theory calculations performed at the B3LYP/6-311G(d) level. The agreement between calculated and observed frequencies for both CH(2)&dbond;CHPH(2) and CH(2)&dbond;CHPD(2) was fairly good. The integrated intensities of isolated and overlapping vibrational bands were determined experimentally. Copyright 2001 Academic Press.     

Heterogeneity in the Nitroxide Micro-Environment: Polarity and Proticity Effects in Spin-Labeled Proteins Studied by Multi-Frequency EPR

This study aims to investigate the g _xx heterogeneity of the g-tensor commonly observed in high-field electron paramagnetic resonance (EPR) spectra of nitroxide spin-labeled sites in proteins. This heterogeneity is addressed in terms of spin-label populations characterized by different polarity and H-bonding properties of the nitroxide micro-environment. The g _xx value for each population is determined from the fit of continuous-wave high-field spectra obtained at 95, 275 and 360 GHz with a series of nitroxide spin-labels covalently attached to different sites in both membrane and water-soluble proteins. The spin-labeled proteins investigated include sensory rhodopsin II and its cognate transducer molecule (HtrII) from Natronomonas pharaonis both in micelles and membranes, bacteriorhodopsin from Halobacterium salinarum in native purple membrane lipid bilayers and water-soluble colicin A from Escherichia coli. To avoid contributions to the g _xx spectral features of the nitroxide label due to nuclear quadrupole interactions arising from ¹⁴N nuclei, and to simplify the nitrogen hyperfine pattern, methanethiosulfonate spin labels, containing the ¹⁵N isotope (I = 1/2) in some experiments, were employed. A consistent analysis of all multi-frequency EPR spectra revealed three distinct g _xx values, g _xx ⁱ , for each investigated position of the labeled proteins. In contrast, distinctly different nitrogen hyperfine splittings A _zz of the nitroxides in the various labeled proteins could not be resolved, but rather an average hyperfine splitting $\bar{A}_{{zz}}$ was obtained. The g _xx ⁱ values as well as the fractions of the different nitroxide populations were found to be correlated with the average hyperfine constant $\bar{A}_{{zz}},$ a parameter which likewise is known to be sensitive to the local polarity of the spin-label micro-environment. Plotting the different g _xx ⁱ values obtained for each EPR spectrum versus $\bar{A}_{{zz}}$ of the labeled proteins reveals new interesting aspects of the nitroxide label micro-environment in terms of polarity and H-bonding propensity (proticity). Linear approximations of the different regions of the plot g _xx ⁱ versus $\bar{A}_{{zz}}$ are presented and compared with theoretical and experimental data available from the literature.     

X-ray and DFT Study of Glaucocalyxin A Compound with Cytotoxic Activity

采用单晶X射线衍射技术对化合物的晶体结构进行了研究. 研究结果表明,Glaucocalyxin A分子含3个六元环和1个五元环,其中六元环均为椅式构象,五元环为扭曲信封式构象. Glaucocalyxin A晶体结构属正交晶系. 采用密度函数理论和Hartree-Fock方法对该化合物晶体的键长、键角和两面角进行计算,并与X衍射测定值进行比较,结果表明理论值与实验值符合相当好. 应用规范不变原子轨道,分别在不同水平上,计算了Glaucocalyxin A的1H和13C NMR化学位移,并对理论计算值的误差     

Unified Calculations of the Energy and EPR Spectra and Their Pressure-Induced Shifts of Ruby

By taking into account the effect of variation in angular wavefunction, reconsidering the expressions of spin-orbit coupling parameters, diagonalizing the complete d³ energy matrix in a trigonally distorted cubic-field and using the wavefunctions from it, the unified calculations of the energy spectrum and EPR spectrum for ruby and their pressure-induced shifts have been carried out. All the calculated results are in very good agreement with a lot of experimental data. The estimation by making use of superposition model has also demonstrated the high sensitivity of trigonal-field parameters to angular variation. The distinct differences in magnitude and/or sign of pressure-induced shifts of various levels are immediately determined by their characteristic dependencies on the parameters of interactions. The pressure-induced shifts of levels and g factors have provided important criteria for the correctness of calculations and assignments of the energy spectrum and wavefunctions.     

Solvation and Rotational Diffusion of Solutes in Room Temperature Ionic Liquids as Studied by EPR Spectroscopy with Nitroxide Spin Probing Method

In this article, we briefly introduced our studies on solvation and rotational diffusion of solutes in room temperature ionic liquids (RTILs) by electron paramagnetic resonance with nitroxide spin probing method. Most of the rotational correlation times for the nitroxide radicals are within the range calculated on the basis of Stokes–Einstein–Debye hydrodynamic theory with stick and slip boundary conditions or Gierer–Wirtz theory except for smaller solutes in some RTILs with smaller BF₄ and PF₆ anions. In RTILs with 1-butyl-3-methylimidazolium as cation and BF₄ or PF₆ as anion, nitroxide radicals undergo rotational diffusion like supercooled liquids and nitroxide radical with smaller volume rotationally slips.     

Comparison of Theoretical Methods and Basis Sets for ab initio and DFT Calculations of the Structure and Frequencies of Normal Vibrations of Polyatomic Molecules

The dependence of the quality of calculation of the geometric parameters and frequencies of normal vibrations on the choice of the theoretical method and the basis set of Gaussian functions has been investigated within the framework of four approximations (DFT/B3LYP, HF, MP2, MP3), using benzene and s-triazine molecules as an example. It has been shown that the molecular parameters calculated using the basis set without polarization functions within the framework of any of the above theoretical methods agree poorly with the experimental data. It has been concluded that the use of the basis set 6-31G(d) within the framework of these methods with allowance for the electron correlation for calculating the geometric parameters and frequencies of normal vibrations of polyatomic cyclic compounds is most optimum in terms of the relation between the expenditure of time and the quality of the calculation. The coefficients of linear scaling of frequencies have been obtained by the DFT/B3LYP method for 22 basis sets that were tested on porphin, pyrrole, indene, and pyridine molecules. Atypically large errors in determining the frequencies of some benzene and s-triazine vibrations have been obtained in a number of quantum-mechanical calculations with large basis sets. The changes in the force field for these cases have been investigated with the example of the benzene molecule.     

A DFT,X- and W-band EPR and ENDOR Study of Nitrogen-Centered Species in (Nano)Hydroxyapatite

Incorporation of the nitrogen-containing impurities in hydroxyapatite (HAp) powders with the sizes of the crystallites of (20–50) nm was studied using first-principles modeling combined with the multi-frequency (9 and 94 GHz) electron paramagnetic resonance (EPR) methods. It is shown that the observed EPR spectra are undoubtedly due to the presence of the bulk radiation-induced NO₃ ^2? radicals. This conclusion is based on spin-polarized density functional theory calculations of spectroscopic parameters within gauge-including projector augmented wave framework followed by the exact comparison of the simulated EPR and electron–nuclear double resonance spectra with the experimental findings. In addition, a comprehensive analysis of the simulated properties allows us to suggest that the paramagnetic centers preferably occupy PO₄ ^3? sites in the HAp structure.     

EPR and DFT Study of the Polycyclic Aromatic Radical Cations from Friedel-Crafts Alkylation Reactions

利用电子顺磁共振和电子核双共振技术在间二甲苯与氯代烷烃和对二甲苯与氯代烷烃进行付-克烷基化反应体系中分别检测到二个多核芳烃正离子自由基信号．研究结果表明,所观察到顺磁共振信号分别来自于2,6-二甲基蒽正离子和1,4,5,8-四甲基蒽自由基的贡献．提出了这二个自由基的生成是在付-克烷基化反应中生成的氯代芳基在AlCl3存在下发生Scholl缩合反应生成多核芳烃,后者发生单电子氧化转变为相应的多核芳烃正离子自由基。利用密度泛函理论计算了这两个自由基的超精细偶合常数,与实验值符合相当满意,从理论上支持了对实验超精细谱线的归属．     

Synthesis, X-ray structure, EPR and optical properties of a ferrocene substituted polychlorotriphenylmethyl radical

The optical, magnetic and electrochemical properties of the octamethylferrocene aldehyde substituted polychlorotriphenylmethyl radical 1 are reported. Radical 1 is prepared in a three step synthetic route starting with a Wittig-Horner reaction to yield (E)-1-formyl-1′-{2-{4-[bis(2,3,4,5,6-pentachlorophenyl)methyl]-2,3,5,6-tetrachloro phenyl}ethen-1-yl}-2,2′,3,3′,4,4′,5,5′-octamethyl ferrocene (6), which is subsequently deprotonated to yield the corresponding anion 7 and finally oxidized to (E)-4-[2-(1′-formyl-2,2′,3,3′,4,4′,5,5′-octamethylferrocen)ethen-1-yl]-2,3,5,6-tetrachlorophenyl-bis(2,3,4,5,6-pentachlorophenyl)methyl radical (1). Radical 1 exhibits a charge-transfer band transition in the near infrared region which is associated with an intramolecular electron transfer from the ferrocene unit (donor) to the radical unit (acceptor) of this dyad molecule. The X-ray crystal structure of [K⁺(18-crown-6)] (E)-[4-[2-(1′-formyl-2,2′,3,3′,4,4′,5,5′-octamethylferrocen)ethen-1-yl]-2,3,5,6-tetrachlorophenyl-bis(2,3,4,5,6-pentachlorophenyl) methide] (7) has been determined. This organic salt shows an interesting one-dimensional polymeric structure formed by the coordination of the K⁺ cation with several atoms of the organic carbanion.     

A Multifrequency (X-, Q-, and W-band) EPR and DFT Study of a Photopolymerizable Dental Resin

The free radicals generated during the polymerization process of Z100 (3 M ESPE) dental resin were examined by electron paramagnetic resonance (EPR) in X-, Q- and W-bands. Experimental generation and spectra simulations were associated with density functional theory (DFT) calculations to determine the molecular structure and explain the EPR spectrum formation. It was assumed that the EPR spectrum was formed by the sum of two different types of radicals: “propagating” and allylic. The spectra simulations and DFT calculations showed good agreement, indicating that the proposed model fully explained the nine lines of the EPR spectrum in X-band and showed that the spectrum formation is the sum of “9 + 5” lines, rather than the “5 + 4” lines predicted early. Simulations in Q- and W-bands showed very close correlation and were essential to support the proposed model.     

Further Develop 1,3,4-Thiadiazole Based Probe to Effectively Detect 2,4,6-Trinitrophenol with the Help of DFT Calculations

Four fluorimetric probes had been developed to rapidly detect 2,4,6-trinitrophenol (TNP). They were designed and synthesized on the basis of 1,3,4-thiadiazole framework combining calculation with experiment. Among them, SK-1 displayed strong blue emission with fluorescence quantum yield as high as 63.6% in solution. Further evaluation demonstrated that SK-1 displays good selectivity and high sensitivity for rapid and visual detection of TNP. It brought significant changes in both colour and fluorescence emission spectrum. The detection limit was as low as 38 nM. Quenching mechanism was confirmed as photo-induced electron transfer (PET) by nuclear magnetic titration and DFT calculations. What’s more, application in real water samples and solid phase paper tests illustrated the practical significance of detection of TNP in both vapor and solution.