Photophysical properties of dipeptides containing substituted 3-(quinoxalin-6-yl) alanine. Spectroscopic studies and theoretical calculations.

The photophysical properties of excited states of two hybrid dipeptides [N-(3-(2,3-diphenylquinoxaline-6-ylo)alanylo) glycine], Pe-DPhQ, and [N-(3-(2,3 (pirydine-2-ylo) quinoxaline-6-ylo)alanylo) glycine], Pe-DPiQ, have been investigated by a combined solution-state study (absorption, emission) and quantum-mechanical (ab initio, DFT) calculations. The RHF and DFT B3LYP/6-31G (d,p) computations of the ground-state isomers of Pe-DPiQ dipeptide (open, half-closed, and closed) indicate that the most stable is the "open"-type structure with approximately equal (-44.43 degrees , -43.05 degrees ) dihedral angles describing rotation of the aromatic side rings with respect to the quinoxaline framework. This agrees with the literature findings that synthetic peptides are mostly unfolded. The experiments show that emission of Pe-DPiQ dipeptide is strongly temperature dependent, and at ambient and elevated temperatures the fluorescence is prevailing while the phosphorescence dominated emission spectra are observed at 77 K. On the basis of the decay curves that in the broad temperature range (rt-77 K) are biexponential (2 and 9 ns), it was concluded that at least its two major excited-state conformations may interconvert on the nanosecond time scale. The third component, of a small amplitude (10%) and a long time constant (25 ns), appears only in a new fluorescence band (570 nm) that grows up with the temperature increase. Analysis of the CIS/6-31G(d,p) results of the excited-state isomers of Pe-DPiQ supports the interpretation of experimental emission spectra and enables one to assign two excited-state conformations, demonstrating a tendency to keep one of their two side rings coplanar relative to the central quinoxaline plane, as Pe-DPiQ-I* (41.9 degrees , 6.3 degrees ) and Pe-DPiQ-II* (40.1 degrees , 4.5 degrees ) isomers contributing to the room temperature (403 nm) and 363 K (570 nm) fluorescence bands, respectively. The calculations also explain the electronic character of the corresponding S(1)<-->S(0) transitions and show that the state ordering of Pe-DPiQ resembles that of other diazines where the first singlet is of the npi* character while the S(2) and T(1) are the pipi* states. The reason for a strong phosphorescence is assigned to an effective spin-orbit coupling of appropriate singlet and triplet states that leads to ISC transitions and in result to population of the T(1) state and a phosphorescence from the T(1) state. From the present study, it was concluded that incorporation of quinoxaline moiety into the model peptides does not change the useful spectroscopic properties of the fluorophore and allows one to design its new analogues with improved activity and specificity.

Structural variability and the nature of intermolecular interactions in Watson-Crick B-DNA base pairs.

A set of nearly 100 crystallographic structures was analyzed using ab initio methods in order to verify the effect of the conformational variability of Watson-Crick guanine-cytosine and adenine-thymine base pairs on the intermolecular interaction energy and its components. Furthermore, for the representative structures, a potential energy scan of the structural parameters describing mutual orientation of the base pairs was carried out. The results were obtained using the hybrid variational-perturbational interaction energy decomposition scheme. The electron correlation effects were estimated by means of the second-order Møller-Plesset perturbation theory and coupled clusters with singles and doubles method adopting AUG-cc-pVDZ basis set. Moreover, the characteristics of hydrogen bonds in complexes, mimicking those appearing in B-DNA, were evaluated using topological analysis of the electron density. Although the first-order electrostatic energy is usually the largest stabilizing component, it is canceled out by the associated exchange repulsion in majority of the studied crystallographic structures. Therefore, the analyzed complexes of the nucleic acid bases appeared to be stabilized mainly by the delocalization component of the intermolecular interaction energy which, in terms of symmetry adapted perturbation theory, encompasses the second- and higher-order induction and exchange-induction terms. Furthermore, it was found that the dispersion contribution, albeit much smaller in terms of magnitude, is also a vital stabilizing factor. It was also revealed that the intermolecular interaction energy and its components are strongly influenced by four (out of six) structural parameters describing mutual orientation of bases in Watson-Crick pairs, namely shear, stagger, stretch, and opening. Finally, as a part of a model study, much of the effort was devoted to an extensive testing of the UBDB databank. It was shown that the databank quite successfully reproduces the electrostatic energy determined with the aid of ab initio methods.

On the nature of intermolecular interactions in nucleic acid base-amino acid side-chain complexes.

Twenty hydrogen-bonded complexes composed of nucleic acid base and amino acid side chain have been analyzed using ab initio quantum chemistry methods with the aim of gaining insights into the nature of molecular interactions in these systems. The intermolecular interaction energies were estimated using the second-order Møller-Plesset perturbation theory and coupled clusters approach with single and double excitations, while their components have been determined by means of a hybrid variational-perturbational decomposition scheme. Additionally, the topological analysis of an electron density distribution of the studied complexes has been performed. In the case of all of the studied neutral complexes, the main source of stabilization is the delocalizaction energy associated with the electron density deformation upon the interaction which contributes almost half of the total interaction energy. Furthermore, analysis of the interaction induced difference density maps of complexes containing neutral amino acid side chains reveals that the delocalization component involves the electron density changes localized in the double-hydrogen-bonded ring structures. A relatively good correlation between the sum of densities at hydrogen-bond critical points and the Hartree-Fock intermolecular interaction energy components (electrostatic, delocalization, and exchange) has been observed for the two independently considered sets of complexes, containing positively charged and neutral amino acid side chains.

Polarized IR and Raman spectra and ab initio calculations for bis(guanidine) zirconium bis(nitrilotriacetate) hydrate single crystal [C(NH2)3]2[Zr[N(CH2COO)3]2](H2O)--the new laser Raman converter.

Fourier transform polarized IR and Raman spectra of bis(guanidine) zirconium bis(nitrilotriacetate) hydrate single crystal [C(NH(2))(3)](2)[Zr[N(CH(2)COO)(3)](2)](H(2)O) have been measured in the regions 30-4000 and 80-4000 cm(-1) and correlated with X-ray structural data. The factor group analysis has been applied in the discussion of the dichroic dependence of the vibrational modes. The assignment of the internal vibrations for the [Zr(nitrilotriacetate)2]2- complex ion has been based on the ab initio quantum chemical calculations. The usefulness of the studied crystal as Raman laser converter was analyzed basing on the comparison of the spontaneous and stimulated Raman spectra.

The dimerization of SnCl2(g): mass spectrometric and theoretical studies.

The vaporization of SnCl2(s) was investigated in the temperature range between 382 and 504 K by the use of Knudsen effusion mass spectrometry. The Sn+, SnCl+, SnCl2+, Sn2Cl3+, and Sn2Cl4+ ions were detected in the mass spectrum of the equilibrium vapor. The SnCl2(g) and Sn2Cl4(g) gaseous species were identified, and their partial pressures were determined. The structure and vibrational properties of both species and corresponding fragmentation products were studied applying density functional theory and second-order Møller-Plesset perturbation theoretical approaches. Molecular parameters yielded thermodynamic functions by the use of statistical thermodynamics. The sublimation enthalpies of SnCl2(g) and Sn2Cl4(g) at 298 K resulting from the second- and third-law methods are evaluated as 130.9 +/- 6.2 kJ mol(-1) and 155.8 +/- 7.3 kJ mol(-1), respectively. The enthalpy changes of the dissociation reactions Sn2Cl4(g) = 2 SnCl2(g) were obtained as delta(d)H degrees(298) = 106.8 +/- 6.2 kJ mol(-1). The corresponding theoretical value amounts to 103.4 kJ mol(-1). The change of monomer properties due to the dimerization reaction is also discussed.