Towards a full reference library of MSn spectra. II: A perspective from the library of pesticide spectra extracted from the literature/Internet

To gain perspective on building full transferable libraries of MSⁿ spectra from their diverse/numerous collections, a new library was built from 1723 MS^>1 spectra (mainly MS² spectra) of 490 pesticides and related compounds. Spectra acquired on different types of tandem instruments in various experimental conditions were extracted from 168 literature articles and Internet sites. Testing of the library was based on searches where 'unknown' and reference spectra originated from different sources (mainly from different laboratories) were cross‐compared. The NIST 05 MS² library was added to the reference spectra. The library searches were performed with all the test spectra or were divided into different subsamples containing (a) various numbers of replicate spectra of test compounds or (b) spectra acquired from different instrument types. Thus, the dependence of true/false search (identification) result rates on different factors was explored. The percentage of 1^st rank correct identifications (true positives) for the only 'unknown' mass spectrum and two and more reference spectra and matching precursor ion m/z values was 89%. For qualified matches, above the cut‐off match factor, that rate decreased to 80%. The corresponding rates based on the best match for two and more 'unknown' and reference spectral replicates were 89–94%. For quadrupole instruments, the rates were even higher: 91–95% (one 'unknown' spectrum) and 90–100% (two and more such spectra). This study shows that MS² spectral libraries generated from the numerous literature/Internet sources are not less efficient for the goal of identification of unknown compounds including pesticides than very common EI‐MS¹ libraries and are almost as efficient as the most productive from current MS² spectral databases. Such libraries may be used as individual reference databases or supplements to large experimental spectral collections covering many groups of abundant compounds and different types of tandem mass spectrometers. Copyright © 2011 John Wiley & Sons, Ltd.     

Ab initio investigation of vibrational spectra of water-(CO2)n complexes (n = 1, 2)

In this paper, we have calculated using the ab initio method the IR vibrational spectra of complexes of CO2 formed with water (sp3 O-donating atom). Binding energies and structures of the CO2-H2O and water-(CO2)2 complexes have been determined at the second-order level of the Moller-Plesset perturbation theory (MP2) using Dunning's basis sets. The results are presented and critically discussed in terms of the nature of the water-CO2 interactions, electron donor acceptor (EDA) and weak O...H-O interactions. For water-(CO2)2 trimer, it is also shown that the contribution to the interaction energy of the irreducible three-bodies remains relatively negligible. We have analyzed the frequency shifts and the IR and Raman intensity variations under the complex formation. We have particularly emphasized the splitting of the 2 bending mode of CO2 and stretching modes of water, which have been revealed as the most pertinent probes to assess the nature of the forces involved in the different complexes. Finally, because water can play the role of Lewis base and acid as well, we found that weak O...H-O interactions can cooperate with EDA interactions in trimer, leading to very specific spectral signatures that are further discussed.     

Molecular structure and infrared spectra of (HXeCN)n (n=2, 3 or 4)

The structure, energetics, and vibrational spectra of the (HXeCN)2 dimer were investigated at the CCSD(T), MP2 and B3LYP levels. Such properties of the (HXeCN)3 trimer and (HXeCN)4 tetramer were investigated at the B3LYP level. The dimer, trimer, and tetramer were predicted to have a C2h, C2v, and D2d structure, respectively. In all of these oligomers, the N?Xe intermonomeric interaction is the most important one for holding the monomers together. Included with the ZPVE and BSSE, the stabilization energy of the dimer is 12.36 kcal/mol at the CCSD(T) level, while those of the dimer, trimer, and tetramer are 10.42, 18.23, and 31.34 kcal/mol, respectively, at the B3LYP level. At the B3LYP level, with respect to those of the isolated monomer, the C-Xe and Xe-H asymmetric stretching frequencies are shifted by -11.2 and +128.0 cm(-1) for the dimer, -51.6, +220.7 and -11.5, +96.6 cm(-1) for the trimer, and -14.1 and +201.8 cm(-1) for the tetramer.     

Electronic spectra of heteroatom-containing isoelectronic carbon chains C(2n)S and C2(n)Cl+ (n=1-5)

Structures and stabilities of carbon chains C(2n)S and C2(n)Cl+ (n=1-5) in their ground states have been investigated by the density functional theory and the coupled cluster approach using single and double substitutions. The complete active space self-consistent-field method has been used for geometry optimization of selected excited states in both series. Calculations show that both C(2n)S (n=1-5) and C2(n)Cl+ (n=3-5) have linear structures in the triplet ground state 3Sigma-, while C2Cl+ and C4Cl+ have nonlinear structures in the ground state 3A". The vertical transition energies and emission energies by the multiconfigurational second-order perturbation theory in linear clusters C(2n)S and C2(n)Cl+ exhibit similar size dependences. In comparison with the available experimental observations, the predicted excitation energies for the allowed 2 3Sigma- <--X 3Sigma- transitions have an accuracy of no more than 0.24 eV. Spin-orbit coupling configuration interaction calculations indicate that the spin-forbidden 2 1Sigma+<--X 3Sigma- transition in these species has an oscillator strength with the magnitude of 10(-4)-10(-5), and they may be observable experimentally.     

Infrared spectra of the water-nitrogen complexes (H2O)2-(N2)n(n = 1-4) in argon matrices

The infrared spectra of the water-nitrogen complexes trapped in argon matrices have been studied with Fourier transform infrared absorption spectroscopy. The absorption lines of the H20-N2 1:1, 1:2, 1:n, and 2:1 complexes have been confirmed on the basis of the concentration effects. In addition, we have observed a few lines and propose the assignments for the 2:2, 2:3, and 2:4 complexes in the nu1 symmetric stretching and nu2 bending regions of the proton-acceptor molecule, and in the bonded OH stretching region of the proton-donor molecule. The redshifts in the bonded OH stretching mode and blueshifts in the OH bending mode suggest that the hydrogen bonds in the (H2O)2-(N2)n complexes with n = 1-4 are strengthened by the cooperative effects compared to the pure H2O dimer. Two absorption bands due to the 3:n complexes are also observed near the bonded OH stretching region of the H2O trimer.     

Electronic spectra of compounds containing the conjugated tetratomic system X(V)Y=Z

The correlation of the spectra of conjugated tetratomic and triatomic systems was examined by means of corrected Dewar rules.N. D. Zelinskii Institute of Organic Chemistry, Russian Academy of Sciences, 117913 Moscow. Translated fromIzvestiya Akademii Nauk, Seriya Khimicheskaya, No. 6, pp. 1353–1356, June, 1992.     

Infrared spectra of HC2-.(C2H2)n and O2-.(C2H2)n clusters (n=2-5)

We study the solvation of HC2- and O2- with acetylene ligands by means of midinfrared photodissociation spectroscopy in the CH stretching region, monitoring C2H2 evaporation upon infrared photon absorption by the parent cluster ions. Our findings are interpreted with the help of density functional theory. The infrared spectra indicate that while the binding generally occurs through ionic H bonds, there are two different classes of ligands which differ in their binding strength. This holds true for both core ions, even though their electronic structures and charge distributions are very different.     

Infrared spectra of the Li+-(H2)n (n=1-3) cation complexes

The Li+-(H2)n n=1-3 complexes are investigated through infrared spectra recorded in the H-H stretch region (3980-4120 cm-1) and through ab initio calculations at the MP2/aug-cc-pVQZ level. The rotationally resolved H-H stretch band of Li+-H2 is centered at 4053.4 cm-1 [a -108 cm-1 shift from the Q1(0) transition of H2]. The spectrum exhibits rotational substructure consistent with the complex possessing a T-shaped equilibrium geometry, with the Li+ ion attached to a slightly perturbed H2 molecule. Around 100 rovibrational transitions belonging to parallel Ka=0-0, 1-1, 2-2, and 3-3 subbands are observed. The Ka=0-0 and 1-1 transitions are fitted by a Watson A-reduced Hamiltonian yielding effective molecular parameters. The vibrationally averaged intermolecular separation in the ground vibrational state is estimated as 2.056 A increasing by 0.004 A when the H2 subunit is vibrationally excited. The spectroscopic data are compared to results from rovibrational calculations using recent three dimensional Li+-H2 potential energy surfaces [Martinazzo et al., J. Chem. Phys. 119, 11241 (2003); Kraemer and Spirko, Chem. Phys. 330, 190 (2006)]. The H-H stretch band of Li+-(H2)2, which is centered at 4055.5 cm-1 also exhibits resolved rovibrational structure. The spectroscopic data along with ab initio calculations support a H2-Li+-H2 geometry, in which the two H2 molecules are disposed on opposite sides of the central Li+ ion. The two equivalent Li+...H2 bonds have approximately the same length as the intermolecular bond in Li+-H2. The Li+-(H2)3 cluster is predicted to possess a trigonal structure in which a central Li+ ion is surrounded by three equivalent H2 molecules. Its infrared spectrum features a broad unresolved band centered at 4060 cm-1.     

Mg(XeF(2))(n)()](AsF(6))(2) (n = 4, 2): first compounds of magnesium with XeF(2)

The reaction between Mg(AsF(6))(2) and XeF(2) in anhydrous HF (aHF) at room temperature yields two compounds with XeF(2) bonded directly to the Mg(2+) cation: [Mg(XeF(2))(4)](AsF(6))(2); [Mg(XeF(2))(2)](AsF(6))(2). The 1:4 compound is obtained with excess XeF(2) while the 1:2 compound is prepared from stoichiometric amounts of Mg(AsF(6))(2) and XeF(2). [Mg(XeF(2))(4)](AsF(6))(2) crystallizes in an orthorhombic crystal system, space group P2(1)2(1)2(1), with a = 8.698(15) A, b = 14.517(15) A, c = 15.344(16) A, V = 1937(4) A(3), and Z = 4. The octahedral coordination sphere of Mg consists of one fluorine atom from each of the four XeF(2) molecules and two fluorine atoms from the two AsF(6) units. [Mg(XeF(2))(2)](AsF(6))(2) crystallizes in the orthorhombic crystal system, space group Pbam, with a = 8.9767(10) A, b = 15.1687(18) A, c = 5.3202(6) A, V = 724.42(14) A(3), and Z = 2. The octahedral coordination sphere consists of two fluorine atoms, one from each of the two XeF(2) molecules and four fluorine atoms from the four bridging AsF(6) units.     

Synthesis, Raman spectra and crystal structures of [Cu(XeF2)n](SbF6)2 (n=2, 4)

Pure [Cu(XeF2)2](SbF6)2 was prepared by the reaction of Cu(SbF 6) 2 with a stoichiometric amount of XeF2 in anhydrous hydrogen fluoride (aHF) at ambient temperature. The reaction between Cu(SbF6)2 and XeF2 (1:4 molar ratio) in aHF yielded [Cu(XeF2)4](SbF6)2 contaminated with traces of Xe 2F 3SbF6 and CuF2. The 6-fold coordination of Cu(2+) in [Cu(XeF2)2](SbF6)2 includes two fluorine atoms from two XeF2 ligands and four fluorine atoms provided by four [SbF6](-) anions. The neighboring [Cu(XeF 2)2](2+) moieties are connected via two [SbF6] units, with the bridging fluorine atoms in cis positions, into infinite [Cu(eta(1)-XeF2)2](cis-eta(2)-SbF 6)2[Cu(eta(1)-XeF 2)2] chains. Because of the high electron affinity of Cu(2+), coordinated XeF2 shows the highest distortion (Xe-Fb=210.2(5) pm, Xe-Ft=190.6(5) pm) observed so far among all known [M(x+)(XeF2)n](A)x (A=BF4, PF6, etc.) complexes. The four equatorial coordination sites of the Cu(2+) ion in [Cu(XeF 2) 4](SbF6)2 are occupied by four XeF 2 ligands. Two fluorine atoms belonging to two [SbF6] units complete the Cu (2+) coordination environment. The neighboring [Cu(XeF2)4](2+) species are linked via one [SbF6] unit, with bridging fluorine atoms in trans positions, into linear infinite [Cu(eta(1)-XeF2)4](trans-eta(2)-SbF6)[Cu(eta(1)-XeF2)4] chains. To compensate for the remaining positive charge, crystallographically independent [SbF6](-) anions are located between the chains and are fixed in the crystal space by weak Xe...F(Sb) interactions.     

1H and 13C n.m.r. spectra of dichloro(trans-2-chlorovinyl)arsine

Proton and carbon magnetic resonance spectra of Lewisite or dichloro(trans-2-chlorovinyl)arsine have been measured and the results are compared with the n.m.r. spectral parameters of other trans-1,2-substituted ethylenes. The coupling constants can be rationalized by substituent electronegativity. The chemical shifts show an unusually large paramagnetic effect from the AsCl₂ group.     

Development of a gas standard reference material containing eighteen volatile organic compounds

Summary A procedure to prepare primary gas cylinder standards for eighteen volatile organic compounds (VOC's) at the 1–15 nmol/mol (ppb) level was developed. The gas standards that were prepared by this procedure were intercompared by using gas chromatography with flame ionization detection (GC-FID) and electron capture detection (GC-ECD). The data, gravimetric concentration of the standards versus the respective GC peak area response, were plotted for each compound and fitted using linear regression. The regression analysis showed excellent agreement among the standards for each compound. These gas standards were evaluated over a period of 2 years and were determined to be stable and accurate. This research resulted in the development of Standard Reference Material (SRM) 1804, which contains these 18 volatile organic compounds in nitrogen at a nominal concentration of 5 nmol/mol for each compound. A batch of cylinders containing the mixture was procured from a commercial supplier. Each cylinder in the batch was analyzed for each of the 18 components. The data showed that the batch was homogeneous and stable for 15 of the 18 organic compounds, resulting in certification and issuance of SRM 1804.     

Electronic structure of HgBa2Ca(n-1)Cu(n)O(2n+2) (n = 1, 2, 3) superconductor parent compounds from periodic hybrid density functional theory

The electronic structure of HgBa(2)Ca(n) (-1)Cu(n)O(2n+2) (n = 1, 2, and 3) high T(c) superconductor parent compounds has been investigated by means of periodic hybrid density functional theory. Similar to other cuprates, these materials are predicted to exhibit an antiferromagnetic ground state with well localized S = 1/2 magnetic centers at the Cu(2+) sites. However, the presence of the HgO(2) structural units largely defines the nature of states dominating the energy range around Fermi energy. This results in a complex charge transfer character of the insulating gap which decreases when increasing the number of CuO(2) planes in the unit cell, to the point that in the HgBa(2)Ca(2)Cu(3)O(8) compound it becomes so small that one can claim that the resulting material is metallic. Nevertheless, the metallic character arises from the HgO(2) structural units and coexists with the antiferromagnetic order arising from the localized spins at the Cu(2+) sites.     

Luminescent di- and polynuclear organometallic gold(I)-metal (Au2, {Au2Ag}n and {Au2Cu}n) compounds containing bidentate phosphanes as active antimicrobial agents

The reaction of new dinuclear gold(I) organometallic complexes containing mesityl ligands and bridging bidentate phosphanes [Au(2)(mes)(2)(μ-LL)] (LL=dppe: 1,2-bis(diphenylphosphano)ethane 1a, and water-soluble dppy: 1,2-bis(di-3-pyridylphosphano)ethane 1b) with Ag(+) and Cu(+) lead to the formation of a family of heterometallic clusters with mesityl bridging ligands of the general formula [Au(2)M(μ-mes)(2) (μ-LL)][A] (M=Ag, A=ClO(4)(-), LL=dppe 2a, dppy 2b; M=Ag, A=SO(3)CF(3)(-), LL=dppe 3a, dppy 3b; M=Cu, A=PF(6)(-), LL=dppe 4a, dppy 4b). The new compounds were characterized by different spectroscopic techniques and mass spectrometry The crystal structures of [Au(2)(mes)(2)(μ-dppy)] (1b) and [Au(2)Ag(μ-mes)(2)(μ-dppe)][SO(3)CF(3)] (3a) were determined by a single-crystal X-ray diffraction study. 3a in solid state is not a cyclic trinuclear Au(2)Ag derivative but it gives an open polymeric structure instead, with the {Au(2)(μ-dppe)} fragments "linked" by {Ag(μ-mes)(2)} units. The very short distances of 2.7559(6)?? (Au-Ag) and 2.9229(8)?? (Au-Au) are indicative of gold-silver (metallophilic) and aurophilic interactions. A systematic study of their luminescence properties revealed that all compounds are brightly luminescent in solid state, at room temperature (RT) and at 77?K, or in frozen DMSO solutions with lifetimes in the microsecond range and probably due to the self-aggregation of [Au(2)M(μ-mes)(2)(μ-LL)](+) units (M=Ag or Cu; LL=dppe or dppy) into an extended chain structure, through Au-Au and/or Au-M metallophilic interactions, as that observed for 3a. In solid state the heterometallic Au(2)M complexes with dppe (2a-4a) show a shift of emission maxima (from ca. 430 to the range of 520-540?nm) as compared to the parent dinuclear organometallic product 1a while the complexes with dppy (2b-4b) display a more moderate shift (505 for 1b to a max of 563?nm for 4b). More importantly, compound [Au(2)Ag(μ-mes)(2)(μ-dppy)]ClO(4) (2b) resulted luminescent in diluted DMSO solution at room temperature. Previously reported compound [Au(2)Cl(2)(μ-LL)] (LL dppy 5b) was also studied for comparative purposes. The antimicrobial activity of 1-5 and Ag[A] (A=ClO(4)(-), SO(3)CF(3)(-)) against gram-positive and gram-negative bacteria and yeast was evaluated. Most tested compounds displayed moderate to high antibacterial activity while heteronuclear Au(2)M derivatives with dppe (2a-4a) were the more active (minimum inhibitory concentration 10 to 1?μg?mL(-1)). Compounds containing silver were ten times more active to gram-negative bacteria than the parent dinuclear compound 1a or silver salts. Au(2)Ag compounds with dppy (2b, 3b) were also potent against fungi.     

13C n.m.r. spectra of some pyrylium salts and related compounds

The ¹³C chemical shifts of several alkyl and phenyl substituted pyrylium perchlorates, together with related pyridine and pyridinium salts, are reported. The shifts in the isoelectronic series benzene, pyridine, pyrylium cation correlate well with charge densities calculated by INDO MO theory. Charge densities also account for the shift changes found at C-3, C-4 and C-5 for protonation of pyridine and 2,4,6-trimethylpyridine. The shift changes observed on protonation for C-2 and C-6, along the series pyridine, 2,4,6-trimethylpyridine and 2,4,6-triphenylpyridine can only be rationalized by consideration of both charge density and π-bond order changes. The effects of alkyl substitution on the shifts of the pyrylium cations are not accounted for by charge density changes. Empirical correlations of these shifts with literature data for the alkylbenzenes and the shifts of the phenyl substituted 6-membered heterocycles are discussed.