Supramolecular networks of Mn(III)-Schiff base complexes assembled by nitrate counterions: X-ray crystal structures of 1D chains and 2D networks

A series of Mn(III) nitrate complexes have been synthesized from dianionic hexadentate Schiff bases obtained by condensation of 3-methoxy-2-hydroxybenzaldehyde with different diamines. The complexes have been characterised by elemental analysis, ESI mass spectrometry, IR and ¹H NMR spectroscopy. Magnetic studies and molar conductivity measurements were also performed. Complexes [MnL¹(H₂O)₂]₂·2NO₃·2CH₃OH (1), [MnL²(H₂O)₂]₂·2NO₃·2CH₃OH (2) and [MnL⁵(H₂O)₂]₂·2NO₃·6H₂O (5) were crystallographically characterised. The X-ray structures show an octahedral geometry around the metal with the Schiff base in the equatorial plane acting as tetradentate and water or methanol molecules in the axial positions. The octahedron entities are linked in pairs by μ-aquo bridges between neighbouring axial water molecules and also by π-π stacking interactions, establishing dimeric and polymeric structures. Nitrate anions are accommodated in the cavities of the framework and form hydrogen bonds with the aqua ligands and the methanol or crystal water, leading to infinite supramolecular aggregates of the complexes. Comparison of chloride, perchlorate and nitrate complexes indicate that the nature of the anions is the key factor directing the structural topologies.     

Analysis of the CO2 and NH3 reaction in an aqueous solution by 2D IR COS: formation of bicarbonate and carbamate

The two-dimensional (2D) infrared correlation spectra obtained from the reaction time- and concentration-dependent IR spectra elucidates the reaction of CO2 and NH3 in an aqueous solution for CO2 absorption. In the synchronous 2D correlation spectra, the interrelation of the proton with carbamate and bicarbonate indicates that the pH level affected the formation reactions of the two products. Furthermore, the interrelation of carbamate with bicarbonate confirmed the conversion of carbamate into bicarbonate with the release of protons (or the decrease of the pH). From the experimental results including the asynchronous 2D correlation spectra, the reaction of the CO2 and aqueous ammonia proceeded through the following steps: formation of carbamate, formation of bicarbonate, release of protons, and conversion of carbamate into bicarbonate. The analysis of the formation of carbamate and bicarbonate by 2D infrared correlation spectroscopy provides useful information on the reaction mechanism of CO2 and NH3 in aqueous solutions.     

Crystal structures of cesium hydrogen oxalate and cesium oxalate dihydrate

All-Union Scientific-Research Institute for Chemical Reagents and Highly Pure Chemical Substances. Translated from Zhurnal Strukturnoi Khimii, Vol. 31, No. 4, pp. 154–157, July–August, 1990.     

Decomposition of oxalate by hydrogen peroxide in aqueous solution

The decomposition rate of oxalate by hydrogen peroxide has been investigated by a KMnO₄ titration method. The rate equation for decomposition of hydrogen peroxide in the aqueous phase is 1n([H₂O₂]/[H₂O₂]₀)=?k₁·t, where k₁=0.2, for [H⁺]<2M, k₁=0.2+0.34([H⁺]?2), for [H⁺]>2M. As the acidity increases over 2M, an acid catalysis effect appeard. The new rate equation proposed for the decomposition of oxalate by hydrogen peroxide is $$ - \frac{d}{{dt}}X_{[OX]} = k_2 [H_2 O_2 ]_0 (1 - X_{[OX]} )(e^{ - k_1 t} - \frac{{[OX]_0 }}{{[H_2 O_2 ]_0 }}X_{[OX]} )$$ The rate constant for decomposition of oxalate, k₂, increased with nitric acid concentration and the effect of hydrogen ion concentration was expressed as k₂=a[H⁺]ⁿ, where the values fora andn were a=1.54, n=0.3 at [H⁺]<2M, a=0.31, n=2.5 at [H⁺]>2M, respectively.     

Dual-frequency 2D IR on interaction of weak and strong IR modes

Dual-frequency 2D IR heterodyne photon-echo spectroscopy of C[triple bond]N and C=O stretching vibrational modes in 2-cyanocoumarin is reported. We have shown that the interaction among these modes provides convenient and useful structural constraints for molecules. Implementation of two pulse sequences, 4, 4, and 6 microm and 6, 6, and 4 microm, allowed the clear determination of contributions caused by vibrational relaxation. Positive correlation between C[triple bond]N and C=O frequency distributions was observed in 2-cyanocoumarin. Because C[triple bond]N modes are highly localized and have frequencies in a spectral region with minimal water absorption, the C[triple bond]N/C=O interactions have a strong potential for use as structural reporters in proteins. In addition to CN/CO peaks, the cross-peaks responsible for the C[triple bond]N/C=C interaction are also observed in the 2D IR spectra, where C=C is a coumarin ring stretching mode. We have demonstrated that 2D IR spectroscopy can utilize interactions of strong IR modes with weak local modes as structural reporters.     

Glucose and fructose hydrates in aqueous solution by IR spectroscopy

In the mid-infrared attenuated total reflectance (MIR-ATR) spectra of aqueous d-glucose and d-fructose solutions, two hydrates were found by factor analysis (FA) for each sugar, d-glucose penta- and dihydrates and d-fructose penta- and monohydrates. We obtained the spectra and abundances for these hydrates as a function of carbohydrate concentrations. The biggest difference in these spectra lies in the CO stretch region. From the distribution of the species, the equilibrium between d-glucose pentahydrate and dihydrate is 3(H2O)2+2(C6H12O(6).2H2O) right arrow over left arrow 2(C6H12O(6).5H2O), with the equilibrium constant KG=(3.2+/-0.6)x10(-5) L3 mol-3. For d-fructose, the equilibrium is between pentahydrate and monohydrate, 2(H2O)2+C6H12O6.H2O right arrow over left arrow C6H12O(6).5H2O, with the equilibrium constant KF=(7.1+/-1.2)x10(-3) L2 mol-2. The four hydrates are present only in aqueous solutions and cannot be obtained in the solid state.     

Characterization of fungal degraded lime wood by FT-IR and 2D IR correlation spectroscopy

The action of soft-rot fungus Chaetomium globosum has been studied. The decayed lime wood samples were observed for different periods of exposure. The degree of decay was determined by weight loss which was of 50.4% after 133 days. The samples were analyzed by FT-IR and 2D IR correlation spectroscopy.The intensity bands assigned to different vibrations from cellulose and hemicelluloses show a decrease, while the intensities of the bands assigned to C–O vibrations due to the formation of oxidized structures increase. At the same time, the intensity of the band assigned to C–O in metoxyl groups from lignin shows a decrease with increasing exposure time. The differences between reference and decayed wood spectra were examined in detail using 2D correlation spectroscopy and the second derivative analysis for two exposure time periods — of 0–70 days and 70–133 days. The formation of reactive species due to oxidation reactions induced by enzymes and the demethoxylation of the lignin structure was evidenced.     

Effects of substituents and counterions on the structures of silenolates: a computational investigation

The structures and charge distributions of substituted silenolates [H₂SiC(O)X]⁻ (X=H, SiH₃, Me, t-Bu, OMe, NMe₂; group A), [Y₂SiC(O)H]⁻ (Y=H, F, Me, Ph, SiH₃, SiMe₃; group B), and [Y₂SiC(O)X]⁻ (Y=Me, X=t-Bu, and Y=SiMe₃; X=t-Bu, OMe, NMe₂; group C) were examined through density functional theory calculations. The effects of the solvated counterion (K⁺, Li⁺, or MgCl⁺) and coordination site (O or Si) on the properties of group C silenolates were also studied. The variation in the degree of π-conjugative reverse SiC bond polarization, ΣΦ_RP(π), calculated by natural resonance theory, was determined. The ΣΦ_RP(π) correlated with r(SiC) for both group A and B silenolates, and the correlation between ΣΦ_RP(π) and the sum of valence angles at Si, Σα(Si), was good for group A but poor for group B due to strong influence of the inductive effect. The SiC charge difference correlated well with ΣΦ_RP(π) for group A, but not for group B, again an effect of inductive substituent effects. The group C silenolates were coordinated to Li(THF)₃⁺, MgCl(THF)₄⁺, and K(THF)₅⁺ either via the O or Si atom. The coordination energies show that coordination to the hard O is preferred for Li⁺ and MgCl⁺, but the K⁺ ion coordinated simultaneously to Si and O. Coordination of the solvated metal ion to O resulted in shorter SiC bond length, an increased Σα(Si) value, and lower Δq(SiC) when compared to the naked silenolate. Choice of counterion and substituent provides a means to extensively vary the properties of silenolates such as their reactivity.     

Anharmonic vibrational modes of nucleic acid bases revealed by 2D IR spectroscopy

Polarization-dependent two-dimensional infrared (2D IR) spectra of the purine and pyrimadine base vibrations of five nucleotide monophosphates (NMPs) were acquired in D(2)O at neutral pH in the frequency range 1500-1700 cm(-1). The distinctive cross-peaks between the ring deformations and carbonyl stretches of NMPs indicate that these vibrational modes are highly coupled, in contrast with the traditional peak assignment, which is based on a simple local mode picture such as C═O, C═N, and C═C double bond stretches. A model of multiple anharmonically coupled oscillators was employed to characterize the transition energies, vibrational anharmonicities and couplings, and transition dipole strengths and orientations. No simple or intuitive structural correlations are found to readily assign the spectral features, except in the case of guanine and cytosine, which contain a single local CO stretching mode. To help interpret the nature of these vibrational modes, we performed density functional theory (DFT) calculations and found that multiple ring vibrations are coupled and delocalized over the purine and pyrimidine rings. Generally, there is close correspondence between the experimental and computational results, provided that the DFT calculations include explicit waters solvating hydrogen-bonding sites. These results provide direct experimental evidence of the delocalized nature of the nucleotide base vibrations via a nonperturbative fashion and will serve as building blocks for constructing a structure-based model of DNA and RNA vibrational spectroscopy.     

Vibrational spectra and structures of H2O-NO, HDO-NO, and D2O-NO complexes. An IR matrix isolation and DFT study

The IR spectra of H2O+NO, HDO+NO, and D2O+NO, isolated in solid neon at low temperature have been investigated. Concentration effects and detailed vibrational analysis of deuterated and partially deuterated species allowed identification of three 1:1 HDO-NO species, two 1:1 D2O-NO species, and only one 1:1 H2O-NO complex. From comparison between the experimental spectra and the results of DFT calculations, it appeared that two different types of weakly bound complexes between water and nitric oxide can be formed in a neon matrix. The first species is a 1:1 complex where bonding occurs between water hydrogen and nitric oxide nitrogen, in which OH-N and OD-N intermolecular bonds are engaged. For this complex only DOD-NO, HOD-NO, and DOH-NO isotopic species have been experimentally detected and no IR bands of HOH-NO were observed. This result could be explained by the fact that the dissociation energy of HOH-NO is lower than those of DOD-NO, HOD-NO and DOH-NO. For the second detected 1:1 H2O-NO complex and its isotopic variants, the H2O-NO potential surface was explored systematically at the B3LYP level, but no stable species corresponding to the complex could be calculated. The structure of the second observed 1:1 H2O-NO complex results from columbic attractions between water and nitric oxide and could be stabilized only in matrix, probably by interaction between NO, water and (Ne)n.     

Cloud point of aqueous solutions of tetrabutylammonium dodecyl sulfate is a function of the concentration of counterions in the aqueous phase

The cloud point of the surfactant tetrabutylammonium dodecyl sulfate is shown to be a function of the tetrabutylammonium counterion concentration in the aqueous phase whether the counterions are provided by the surfactant or both the surfactant and added tetrabutylammonium bromide. The micellized surfactant dissociates 17% of its counterions to aqueous phase.     

Determination of the tautomeric structures of uracil thiosubstituted derivatives by IR and RRS spectroscopy

The force fields, vibration frequencies, and relative intensities of the RRS spectra of uracil thiosubstituted derivatives are calculated and analyzed. It is shown that 2S-, 4S-and 2S,4S-thiouracils as well as 2-mercapto-4-thio-and 2,4-dimercapto-tautumers of dithiouracil occur in a neutral water solution.     

Polarized IR spectra of the hydrogen bond in 2-thiopheneacetic acid and 2-thiopheneacrylic acid crystals: H/D isotopic and temperature effects

Polarized IR spectra of 2-thiopheneacetic acid and of 2-thiopheneacrylic acid crystals were measured at 293 and 77 K in the υ(O-H) and υ(O-D) band frequency ranges. The corresponding spectra of the two individual systems strongly differ, one from the other, by the corresponding band shapes as well as by the temperature effect characterizing the bands. The crystal spectral properties remain in close relation with the electronic structure of the two different molecular systems. We show that a vibronic coupling mechanism involving the hydrogen bond protons and the electrons on the π- electronic systems in the molecules determines the way in which the vibrational exciton coupling between the hydrogen bonds in the carboxylic acid dimers occurs. Strong coupling in 2-thiopheneacrylic acid dimers prefers a "tail-to-head"-type Davydov coupling widespread by the π- electrons. A weak through-space coupling in 2-thiopheneacetic acid dimers, of a van der Waals type, is responsible for a "side-to-side"-type coupling. The relative contribution of each exciton coupling mechanism in the dimer spectra generation is temperature and the molecular electronic structure dependent. This explains the observed difference in the temperature- induced evolution of the compared spectra.     

A series of lanthanide-organic frameworks constructed by 2-methyl imidazole dicarboxylate and oxalate: synthesis,structures, and properties

Five lanthanide(III) coordination polymers with 2-methyl-1H-imidazole-4,5-dicarboxylic acid (H₃MIDC) and ammonium oxalate, {[(Ln1)₂(HMIDC)₂(C₂O₄)(H₂O)₃]?·?3H₂O} _n (Ln1?=?Nd (1), Sm (2)), {[Eu₂(HMIDC)₂(C₂O₄)(H₂O)₃]?·?0.5EtOH?·?3H₂O} _n (3), {[Ce₂(HMIDC)₂(C₂O₄)(H₂O)₃]?·?EtOH?·?3H₂O} _n (4), and {[Gd₂(HMIDC)₂(C₂O₄)(H₂O)₃]?·?MeOH?·?3H₂O} _n (5), have been prepared and structurally characterized. Single-crystal X-ray diffraction analyses reveal that 1 and 2 are isostructural, as are 3, 4, and 5. Each exhibits a 3-D open framework, which is built by a regular 2-D grid connected by HMIDC^2? and Ln(III). The luminescence and thermal properties of these complexes have been investigated as well.     

Local structure of beta-hairpin isotopomers by FTIR, 2D IR, and ab initio theory

The 12-residue tryptophan zipper beta-hairpin (SWTWENGKWTWK) and two (13)C-isotopomers were examined in the amide-I region using FTIR and femtosecond two-dimensional infrared (2D IR) spectroscopies. Spectroscopic features of the labeled transitions with (13)C-substituted amide unit present in the terminal or turn region of the hairpin, including their frequency shifts and distributions, line broadenings, orientations, and anharmonicities of diagonal peaks, allow the peptide local structure and local environment to be examined. The results suggest a larger structure fluctuation in the terminal region than in the turn region as a result of the side chain effect and solvent-peptide interaction. The results also suggest that the uncoupled amide-I modes are not degenerate and that this is likely to be a common situation for solvated polypeptides. In addition, the amide-I states in the terminal and turn regions were found to be delocalized over several neighboring amide units. Cross-peaks between the various labeled and unlabeled structural regions were clearly observed in the 2D IR correlation spectra, allowing them to be characterized for monitoring structural changes. These results illustrate the sensitivity of 2D IR to the local environment of solvated peptides. The simulated 1D and 2D IR spectra of the hairpin, obtained by using the vibrational exciton model incorporating coupling constants from quantum chemical computations and semiempirical calculations, were found to reproduce the essential features of the experimental results.