Prediction of the rovibrational emission spectroscopy of B2Σ(+)-X2Σ(+) system in 12C17O+

An analytical formula based on the Herzberg's conventional rovibrational energy levels for diatomic system is proposed by taking multiple differences of spectral lines to predict the R-branch high-lying rovibrational emission spectroscopy, where only 15 accurate known transition lines and rotational constants D(v'), D(v') are needed. Using the formula, the R(11ee) and R(22ff) branches of (0, 2) and (0, 3) transition bands in the B(2)Σ(+)-X(2)Σ(+) system of (12)C(17)O(+) are studied. The results show that not only the relatively lower order rovibrational transition lines given by experiments are reproduced but also the higher and the absent spectral lines are correctly predicted for each band.     

Developing 13C NMR quantitative spectrometric data-activity relationship (QSDAR) models of steroid binding to the corticosteroid binding globulin

We have developed four quantitative spectrometric data-activity relationship (QSDAR) models for 30 steroids binding to corticosteroid binding globulin, based on comparative spectral analysis (CoSA) of simulated ¹³C nuclear magnetic resonance (NMR) data. A QSDAR model based on 3 spectral bins had an explained variance (r ²) of 0.80 and a cross-validated variance (q ²) of 0.78. Another QSDAR model using the 3 atoms from the comparative structurally assigned spectral analysis (CoSASA) of simulated ¹³C NMR on a steroid backbone template gave an explained variance (r ²) of 0.80 and a cross-validated variance (q ²) of 0.73. Positions 3 and 14 from the steroid backbone template have correlations with the relative binding activity to corticosteroid binding globulin that are greater than 0.52. The explained correlation and cross-validated correlation of these QSDAR models are as good as previously published quantitative structure-activity relationship (QSAR), self-organizing map (SOM) and electrotopological state (E-state) models. One reason that the cross-validated variance of QSDAR models were as good as the other models is that simulated ¹³C NMR spectral data are more accurate than the errors introduced by the assumptions and approximations used in calculated electrostatic potentials, E-states, HE-states, and the molecular alignment process of QSAR modeling. The QSDAR models developed provide a rapid, simple way to predict the binding activity of a steroid to corticosteroid binding globulin.     

Density functional theory study on the identification of 3-[(2-morpholinoethylimino)methyl]benzene-1,2-diol

This study deals with the identification of a title compound, 3-[(2-morpholinoethylimino)methyl]benzene-1,2-diol by means of quantum chemical calculations. The optimized molecular structures, vibrational frequencies and corresponding vibrational assignments, thermodynamic properties, charge analyses, nuclear magnetic resonance (NMR) chemical shifts and ultraviolet-visible (UV-vis) spectra of the title molecule in the ground state were evaluated using density functional theory (DFT) with the standard B3LYP/6-311++G(d,p) method and basis set combination for the first time. Theoretical vibrational spectra of the title compound were interpreted with the aid of normal coordinate analysis based on scaled density functional force field. The results show that the obtained optimized geometric parameters (bond lengths, bond angles and bond dihedrals) and vibrational frequencies were observed to be in good agreement with the available experimental results. Moreover, the calculations of the electronic spectra, (13)C and (1)H chemical shifts were compared with the experimental ones. Furthermore, we not only simulated the frontier molecular orbitals (FMO) and molecular electrostatic potential (MEP) but also determined the transition states and energy band gaps, as well. It was found that charge analyses supported the evidences of MEP. Infrared intensities and Raman activities were also reported.     

Two-dimensional correlation spectroscopic studies on coordination between carbonyl group of butanone and metalions

Two dimensional asynchronous spectra were used to characterize coordination between carbonyl group of butanone and metal ions by using an approach proposed in our recent paper.Spectral variation of n-π~*transition band of carbonyl group is used to probe the coordination even if metal ions does not possess any characteristic peak in spectra.Experimental results indicate that Ca~(2+) and Al~(3+) show considerable ability to coordinate with the carbonyl group of butanone and bring about spectral variation of the n-π~*transition band,which is manifested by cross peaks in 2D asynchronous spectra.     

Simultaneous mixture analysis by using non-linear spectrophotometric data and linear iterative target transformation factor analysis

Non-linear absorption spectral data obtained from ternary mixtures of analytes are analyzed by using a linear model, iterative target transformation factor analysis (ITTFA). The use of transformed original variables is used to correct non-linearities in the original data. Absorbance below a certain limit (k) is described as linear and above this limit as non-linear. The extension of the regressor variables is the squared absorbances above the linear range. The variation of the prediction error as a function of the number of the factors and the k-values were considered and the minimum prediction error was evaluated for reaching to optimum. Except the natural non-negativity constraint the correlation constraint also is used on concentration vector in each iteration of ITTFA algorithm. The reliability of the method is evaluated using model data for ternary mixtures by spectral overlapping and different degrees of non-linearity. Simultaneous spectrophotometric determination of Eu³⁺, UO₂²⁺ and Th⁴⁺ with arsenazo III as chromogenic reagent is used as experimental model systems with non-linearity behavior of Eu³⁺and UO₂²⁺ components. The application to both synthetic and real data sets with different degrees of non-linearity demonstrate the ability of the proposed methodology to obtain better results than original data and ITTFA. The relative standard errors of prediction for proposed method in comparison with using the PLS calibration on original and extended data are nearly smaller.     

New diorganotin(IV) derivatives of 7-hydroxycoumarin (umbelliferone) and their adducts with 1,10-phenanthroline

New diorganotin(IV) derivatives of the general formula R2Sn(Umb)2 (where R = n-Bu, n-Oct and Ph; Umb = umbelliferone anion) have been synthesized either by the reaction of R2SnO with umbelliferone under azeotropic removal of water or by the reaction of R2SnCl2 with sodium salt of umbelliferone. Further, the adducts of the general formula R2Sn(Umb)2.phen (where R = n-Bu and n-Oct; phen = 1,10-phenanthroline) have also been synthesized by the interaction of R2Sn(Umb)2 with 1,10-phenanthroline. The bonding and coordination behavior in these derivatives are discussed on the basis of IR and 119Sn M?ssbauer spectroscopic studies in solid state. Their coordination behavior in solution is discussed by the multinuclear (1H, 13C and 119Sn) NMR spectral studies. The M?ssbauer and IR studies indicate that umbelliferone acts as a monoanionic bidentate ligand in R2Sn(Umb)2 coordinating through O(7) and O(1). A distorted octahedral geometry around tin has been proposed for R2Sn(Umb)2 as well as for R2Sn(Umb)2.phen in solid state. The newly synthesized derivatives have been tested for their anti-inflammatory and cardiovascular activities. The average LD50 value >1000 mg kg(-1) of these compounds indicates their safety margin.     

Theoretical studies of the reactions of O(3P) with halogenated methyl (I)

The reaction of o(³P) with CH₂C1 radical has been studied usingab initio molecular orbital theory. G2 (MP.2) method is used to calculate the geometrical parameters, vibrational frequencies and energies of various stationary points on the potential energy surface. The reaction mechanism is revealed. The addition of o(³P) with CH₂Cl leads to the formation of an energy rich intermediate OCH₂Cl^* which can subsequently undergo decomposition or isomerization to the final products. The calculated heat of reaction for each channel is in agreement with the experimental value. The production of H+CHClO and C1+CH₂O are predicted to be the major channels. The overall rate constants are calculated using transition state theory on the basis ofab initio data. The rate constant is pressure independent and exhibits negative temperature dependence at lower temperatures, in accordance with the experimental results.     

CNDO-S2—a semiempirical SCF MO method for transition metal organometallics

A new semiempirical SCF MO procedure available for prediction of the transition metal compounds energy and geometry is developed. The procedure takes an explicit account of the orthogonality of the basis set in the calculation of the core-Hamiltonian elements. A new formula for the resonance integral used in CNDO-S² gives a physically correct treatment of diffuse orbital-localized orbital interaction. The parametrization for atoms H, C, N, O and Ni is presented, with one-center empirical parameters only used. The results of CNDO-S² energy and geometry calculations performed for a number of organic compounds and some nickelorganics are compared with the experimental data. The average absolute errors for the binding energies of organic compounds and nickel complexes are 6.6 kcal/mol and 9.3 kcal/mol respectively.     

XPS and XAES of polyethylenes aided by line shape analysis: The effect of electron irradiation

X-ray photoelectron spectroscopy (XPS) and X-ray induced Auger electron spectroscopy (XAES) have been used to investigate different polyethylene surfaces, i.e. low density polyethylene (PELD), high density polyethylene (PEHD) and polyethylene of ultra high molecular weight (PEUHMW). The ratio of Csp²/sp³ was evaluated from (i) fitting of XPS C 1s spectra, (ii) the width of XAES C KLL spectra (parameter D) and (iii) line shape analysis by the pattern recognition (PR) method using the fuzzy k-nearest neighbors (fkNN) rule. The proposed approaches investigate: (i) the differences between various polyethylene surfaces, (ii) their surface changes and degradation due to electron irradiation under various doses and (iii) their stability under electron beam irradiation.The results of proposed approaches, i.e. C 1s fitting, C KLL width evaluation and PR line shape analysis applied to C 1s and C KLL transitions, are qualitatively consistent. The unirradiated polyethylenes indicate nearly Csp³ hybridizations. Under an electron dose a rapid decrease of Csp³ is observed, starting at a dose of 100 Cm⁻². The quantitative differences observed between results obtained from analyses using the C KLL and C 1s spectra, can be explained with a smaller average information depth of C KLL transition. However, quantitative discrepancies between results of various approaches using the same electron transition, i.e. C KLL or C 1s, are smaller. The surface degradation due to X-ray irradiation was negligible in comparison to electron beam irradiation. The PR method was efficient in identifying the polyethylene surfaces under various electron doses. The largest stability under an electron beam is exhibited by the PEUHMW.     

CO LMR spectrum of14N16O and its analysis with spectra of14N17O and14N18O

LMR spectra for v=1←0 transitions of¹⁴N¹⁶O in X²II_{1/2, 3/2} states were observed at 5.6 μm and 5.4 μm of CO laser. Introducing the advanced isotopic molecular constant scaling function to Hund’s case (a) diatomic structure model, these spectra were analyzed and fitted together with all reliable previous spectral data of¹⁴N¹⁶O as well as¹⁴N¹⁷O and¹⁴N¹⁸O. A full set of precise molecular parameters and their vibrational dependencies have been determined with much higher precision (1–2 orders for most parameters). Many of them have been obtained for the first time. Using isotopic scaling function, the molecular constants of¹⁴N¹⁷O and¹⁴N¹⁸O were deduced.     

Spectroscopic studies on Co(II), Ni(II), Cu(II) and Zn(II) complexes with a N4-macrocylic ligands

Complexes of cobalt(II), nickel(II), copper(II) and zinc(II) with a new tetraaza macrocyclic ligand have been synthesized and characterized by microanalyses, molar conductance, magnetic susceptibility, mass, thermogravimetric (TGA), IR, 1H and 13C NMR, electronic and ESR spectral studies. All the complexes are found to have the formula [MLX2]x nH2O and are six-coordinated with distorted octahedral geometry.     

Quantitative analysis of deuterium using the isotopic effect on quaternary C NMR chemical shifts

Quantitative analysis of specifically deuterated compounds can be achieved by a number of conventional methods, such as mass spectroscopy, or by quantifying the residual ¹H NMR signals compared to signals from internal standards. However, site specific quantification using these methods becomes challenging when dealing with non-specifically or randomly deuterated compounds that are produced by metal catalyzed hydrothermal reactions in D₂O, one of the most convenient deuteration methods. In this study, deuterium-induced NMR isotope shifts of quaternary ¹³C resonances neighboring deuterated sites have been utilized to quantify the degree of isotope labeling of molecular sites in non-specifically deuterated molecules. By probing ¹³C NMR signals while decoupling both proton and deuterium nuclei, it is possible to resolve ¹³C resonances of the different isotopologues based on the isotopic shifts and the degree of deuteration of the carbon atoms. We demonstrate that in different isotopologues, the same quaternary carbon, neighboring partially deuterated carbon atoms, are affected to an equal extent by relaxation. Decoupling both nuclei (¹H, ²H) resolves closely separated quaternary ¹³C signals of the different isotopologues, and allows their accurate integration and quantification under short relaxation delays (D1 = 1 s) and hence fast accumulative spectral acquisition. We have performed a number of approaches to quantify the deuterium content at different specific sites to demonstrate a convenient and generic analysis method for use in randomly deuterated molecules, or in cases of specifically deuterated molecules where back-exchange processes may take place during work up.     

Critical comments on accuracy of quantitative determination of natural humic matter by solid state (13)C NMR spectroscopy

Structural information of natural organic matter (NOM) at the molecular level is very essential in understanding their nature and reactivity. Nuclear magnetic resonance (NMR) is an excellent tool for estimating the gross chemical composition of the very complex humic matter (HM). A well-known fact is that the solid state ¹³C NMR spectral analysis is very parameter-sensitive especially in the study of the heterogenous HM (e.g. baseline corrections, different pulse techniques and spinning rates of the rotor vs. different disruptive sidebands in the spectra). This being the case, it has been emphasized the importance of qualitative and quantitative analyses for generating as real spectra as possible by means of different pulse and polarization techniques, sampling spinning rates as well as certain correction factors. In the present study a practical accuracy for quantitative determination of NOM type material by solid state ¹³C NMR spectroscopy was assessed using a known HM sample. Different magnetic-field strengths, sampling spinning rates, single and ramped amplitude cross polarization techniques and TOSS pulse sequence were applied for obtaining a more reliable insight into the disruptive effect of the chemical shift anisotropy (CSA), especially the most disturbing first order spinning side bands (SSB). The results demonstrated that the SSB problem is not so significant as sometimes stated, at least in the context of HM samples and in the light of the overall reproducibility and uncertainty connected with the sample itself.     

Isotope abundance analysis methods and software for improved sample identification with supersonic gas chromatography/mass spectrometry

We present newly developed isotope abundance analysis (IAA) methods and software which are used to derive elemental formula information from experimental mass spectral data of molecular ion isotopomeric abundances. The software, using a novel method, can also be used to automatically confirm or reject NIST library search results, thereby significantly improving the confidence level in sample identifications. In the case of IAA confirmation of the NIST library results, sample identification is unambiguous, since the confirmation is achieved by two independent sets of data and analytical methods. In the case of a rejection, such as when the molecule is not included in the library's databases, the IAA software independently provides a list of elemental formulae with declining order of matching to the isotopomeric experimental data, in a similar way to accurate mass measurements with costly instruments. IAA is ideally applicable to gas chromatography/mass spectrometry (GC/MS) (and liquid chromatography/electron ionization mass spectrometry (LC/EI-MS)) with a supersonic molecular beam (SMB) since it requires a trustworthy and highly abundant true molecular ion that is unique to the SMB-MS systems, plus the absence of self chemical ionization and vacuum background noise, again unique features of GC/SMB-MS. The various features of the IAA methods and software are described, their performance is demonstrated with the analysis of experimental GC-SMB-MS data and the IAA concept is compared with accurate mass alternatives. The combination of IAA and GC/SMB-MS is believed to be superior to accurate mass GC/MS in view of the general availability of trustworthy molecular ions for an extended range of compounds.     

Hyperfine structure of atoms in combined external fields

In order to interpret experimental hyperfine spectra of the resonance lines of the alkali atoms in presence of external electric and magnetic fields in arbitrary direction relative to each other a computer programme has been developed which computes the splitting of hyperfine components of spectral lines and their expected relative transition probabilities. The computed data can be directly compared with experimental spectra taken by laser-atomic-beam spectroscopy. Splitting parameters, like hyperfine structure constants or polarizabilities, can be evaluated with the help of a fitting procedure. The theoretical approach used in the programme has rather general validity, therefore the programme can be utilized, within the validity of the applied theoretical assumptions, for any kind of atom.     

Experimental and theoretical study of the hydration of phosphate groups in esters of biological interest

We have studied the influence of different groups esterified to phosphates on the strength of the interaction of the PO bond with one water molecule. Experimental vibrational spectra of PO(4)3-, HPO4(2-), H2PO4-, phosphoenolpiruvate (PEP) and ortho-phosphocholamine (o-PC) were obtained by means of FTIR spectroscopy. Geometry calculations were performed using standard gradient techniques and the default convergence criteria as implemented in GAUSSIAN 98 Program. In order to assess the behaviour of such DFT theoretical calculations using B3LYP with 6-31G* and 6-311++G** basis sets, we carried out a comparative work for those compounds. The results were then used to predict the principal bands of the vibrational spectra and molecular parameters (geometrical parameters, stabilisation energies, electronic density). In this work, the relative stability and the nature of the PO bond in those compounds were systematically and quantitatively investigated by means of Natural Bond Order (NBO) analysis. The topological properties of electronic charge density are analysed employing Bader's Atoms in Molecules theory (AIM). The hydrogen bonding of phosphate groups with water is highly stable and the PO bond wavenumbers are shifted to lower experimental and calculated values (with the DFT/6-311++G** basis set). Accordingly, the predicted order of the relative stability of the hydrogen bonding of the water molecule to the PO bond of the investigated compounds is: PO(4)3->HPO4(2-)>H2PO4->phosphoenolpiruvate>phosphocholamine for the two basis sets used.     

Molecular dynamics calculation of molecular volumes and volumes of activation

Experimentally, the effects of pressure on reaction rates are described by their pressure derivatives, known as volumes of activation. Transition state theory directly links activation volumes to partial molar volumes of reactants and transition states. We discuss a molecular dynamics method for the accurate calculation of molecular volumes, within which the volumes of molecular species are obtained as a difference between the volumes of pure solvent and solvent with a single molecule inserted. The volumes thus obtained depend on the molecular geometry, the strength and type of the solute-solvent interactions, as well as temperature and pressure. The partial molar volumes calculated using this approach agree well with experimental data. Since this method can also be applied to transition state species, it allows for quantitative analysis of experimental volumes of activation in terms of structural parameters of the corresponding transition states. The efficiency of the approach is illustrated by calculation of volumes of activation for three nonpolar reactions in nonpolar solvents. The results agree well with the experimental data.     

Standardized basis sets for high-level-correlated relativistic calculations of atomic and molecular electric properties in the spin-averaged Douglas-Kroll (no-pair) approximation I. Groups Ib and IIb

Summary The technique developed earlier for the generation of the so-called first-order polarized basis sets for accurate non-relativistic calculations of molecular electric properties is used to obtain similar basis sets suitable for calculations in the Douglas-Kroll no-pair approximation. The corresponding (relativistic) basis sets are devised for atoms of the Groups Ib and IIb of the periodic table and tested in calculations of atomic polarizabilities and dipole moments of the coinage metal hydrides. Excellent performance of these basis sets has been found in the case of molecular calculations.     

13C, 15N and 113Cd NMR and Molecular Orbital Studies of Novel Bile Acid N-(2-aminoethyl)amides and Their Cd2+-complexes

Lithocholic acid N-(2-aminoethyl)amide (1) and deoxycholic acid N-(2-aminoethyl)amide(2) have been prepared and characterized by¹H, ¹³C and ¹⁵N NMR. The accurate molecular masses of 1 and 2 have been determined by ESI MS. The formation of the Cd²⁺-complexes (1+Cd and 2+Cd) in CD₃OD solution have been detected by ¹H,¹³C, ¹⁵N and ¹¹³Cd NMR. The ¹³C NMR chemical shift assignments of 1 and 2 and their Cd²⁺-complexes are based on DEPT-135 and z-GS ¹H,¹³C HMQC experiments as well as comparison with the assignments of the related structures. The ¹⁵N NMR chemical shiftassignments of the ligands and theirCd²⁺-complexes are based on z-GS¹H,¹⁵N HMBC experiments. ¹³C NMR chemical shift differences between 1and its 1:1 Cd²⁺-complex based on ab initiocalculations at Hartree-Fock SCI-PCM level using3-21G(d) basis set are in agreement with theexperimental shift changes observed onCd²⁺-complexation.     

A conversational mass spectral search and retrieval system—II: Combined search options

An interactive, conversational mass spectral search system based on 8782 uncertified electron-impact mass spectra and accessible over ordinary telephone lines, is described. Compounds whose mass spectra are in the file can be immediately identified and very useful structural inferences can be obtained for compounds that are not represented in the file. The file may be searched in a number of ways, including by peaks and intensities, molecular weight, complete and partial molecular formula, molecular weight plus peaks/intensities, molecular formula plus peaks/intensities and molecular weight plus molecular formula. Lastly, the complete spectrum of any compound in the file can be printed out.