Evidence for new bands in the 3nu1 and 4nu1 regions of propyne

Vibrationally mediated photodissociation and room-temperature photoacoustic (PA) spectroscopy have been used for obtaining action (monitoring the yield of H photofragments) and absorption spectra of the second (3nu(1)) and third (4nu(1)) C-H acetylenic stretches overtone regions in propyne. The band contours appearing in these regions seem mostly regular even though they are perturbed, as expressed by the origin shifts in different K components, splitting of the K structure, and splitting due to resonances between neighboring states. Symmetric rotor simulations of the band contours of the PA and action spectra allowed extraction of the molecular parameters and rough estimates for the homogeneous broadening arising from energy flow to the bath vibrational states. We particularly benefited from the reduced congestion in the jet-cooled action spectra and their simulations, which enabled observation of yet unknown features in the vicinity of the 3nu(1) and 4nu(1) states. Particularly, the emergence of the new state in the 3nu(1) region was confirmed by the action spectra monitored at several differing jet temperatures, suggesting that it is a dark state in IR vibrational excitation that becomes brighter in UV excitation to the upper electronic state. The monitored and Gaussian-fitted Doppler profiles point to the release of H photofragments with low average translational energies, attributed to an indirect dissociation process occurring after internal conversion to the ground electronic state and isomerization to allene.     

Channel inclusion of potassium and tetrachloroplatinate ions in a complex formed between 1,3-diamino-2-propanone and K2PtCl4 in an acidic medium

The crystalline complex dipotassium 1,3-diammonio-2-propanone tetrachloroplatinate trihydrate, formulated as K₂[(NH₃CH₂C)₂O][PtCl₄]₂ · 3H₂O, has been prepared while synthesizing complexes analogous tocis-dichlorodiamine Pt(II). Its structure is orthorhombic, space groupPnma,M _r = 896.1,F(000) = 1640,a = 8.428(4),b = 20.360(10),c = 12.141(7)A,V = 2083.3ų,Z = 4,D _x = 2.860 g cm^–3, (MoK _x) = 196 cm^–1, finalR = 0.083 for 1379 unique reflections. The structure consists of a very extended hydrogen bonded network which involves half of the PtCl₄ ^2– ions, the organic molecules and the water molecules of hydration, leaving large oval channels which accommodate potassium cations and tetrachloroplatinate anions. Within the channel the potassium and tetrachloroplatinate ions pack in columns extending along the a axis. The dense packing is rather reminiscent of that found in the neat salt where each potassium ion is surrounded by six chlorine atoms which describe a polyhedron of a distorted trigonal prism with K⁺ —C1 distances ranging between 3.163–3.187 Å. There is some indirect evidence for the formation of 1,3-diammonio-2-propanone dications which counterbalance the charges of half of the PtCl₄ ^2– ions by protonation of each of the amino nitrogens. The carbonyl oxygens, however, are involved only in a very weak O-C-O interactions along thea axis.     

Characteristics of migration patterns of DNA oligomers in gels and the relationship to the question of intrinsic DNA bending

We have developed a methodology that is capable of quantitatively describing the electrophoretic mobility patterns of oligomeric B-DNA through polyacrylamide gels (PAG) in the presence of varying concentration of the organic solvent 2-methyl-2,4-pentanediol (MPD), used routinely to induce DNA crystallization. The model includes the ion atmosphere and its polarization, electrostatic excluded volume, hydrodynamic interactions, and fluctuation effects that characterize the overall size of the migrating polyion. Using this model, and by critically examining the mobility patterns of linear random-sequence B-DNA molecules in PAG as a function of MPD, we address the question of the discrepancy between current models used to explain the molecular origins of A-tract-induced DNA bending. Direct analysis of the mobility of B-DNA oligomers on PAG, and comparison to the mobility of A-tract-containing oligomers, shows a significant apparent effect of MPD on the mobility of generic B-DNA sequences, which is larger than the effect on A-tract-containing oligomers. The effect is chain-length dependent, especially at lower MPD concentration. Thus, the apparent reduction in gel mobility, as a function of MPD, is not unique to A-tract regions or A-tract-containing molecules. However, our analysis suggests that MPD molecules are probably excluded from the surface of both B-DNA and A-tract molecules. This is supported by circular dichroism studies on A-tract and B-DNA molecules in solutions containing various MPD concentrations.     

Influence of diffusion on the kinetics of excited-state association--dissociation reactions: comparison of theory and simulation

Several recent theories of the kinetics of diffusion influenced excited-state association--dissociation reactions are tested against accurate Brownian dynamics simulation results for a wide range of parameters. The theories include the relaxation time approximation (RTA), multiparticle kernel decoupling approximations and the so-called kinetic theory. In the irreversible limit, none of these theories reduce to the Smoluchowski result. For the pseudo-first-order target problem, we show how the RTA can be modified so that the resulting formalism does reduce correctly in the irreversible limit. We call this the unified Smoluchowski approximation, because it unites modern theories of reversible reactions with Smoluchowski's theory of irreversible reactions.     

Determining the vibrational pattern via overtone cold spectra: C-H methyl stretches of propyne

Vibrationally mediated photodissociation and photoacoustic (PA) spectroscopy were employed for studying the intramolecular dynamics of propyne initially excited to the first through fourth overtone of methyl C-H stretching modes. Room-temperature PA and jet-cooled action spectra, monitoring the absorption of the parent and the yield of the ensuing H photofragments, respectively, were obtained. The PA spectra exhibit mainly broad features, while the action spectra, due to inhomogeneous structure reduction, expose multiple peaks of recognizable shapes in the differing overtone manifolds. Symmetric rotor simulations of the band contours of the action spectra allowed retrieving of band origins and linewidths. The linewidths of the bands in each manifold enabled estimates for energy redistribution times out of the corresponding states to the bath states, the times ranging from 18+/-6 ps for two quanta of C-H excitation to subpicosecond for five quanta. The data were also analyzed in terms of a normal-mode model and a joint local-/normal-mode model. These models enabled determination of harmonic frequencies, anharmonicities, and interaction parameters reproducing the observed data in all monitored regions and provided spectral assignments. The measured Doppler profiles were well fitted by Gaussians with widths suggesting low average translational energies for the released H photofragments. These low energies and their similarities to those for dissociation of propyne isotopomers preexcited to acetylenic C-H stretches were ascribed to an indirect dissociation process occurring after internal conversion to the ground electronic state and isomerization to allene.     

Infrared overtone spectroscopy and unimolecular decay dynamics of peroxynitrous acid

Peroxynitrous acid (HOONO) is generated in a pulsed supersonic expansion through recombination of photolytically generated OH and NO(2) radicals. A rotationally resolved infrared action spectrum of HOONO is obtained in the OH overtone region at 6971.351(4) cm(-1) (origin), providing definitive spectroscopic identification of the trans-perp (tp) conformer of HOONO. Analysis of the rotational band structure yields rotational constants for the near prolate asymmetric top, the ratio of the a-type to c-type components of the transition dipole moment for the hybrid band, and a homogeneous linewidth arising from intramolecular vibrational energy redistribution and/or dissociation. The quantum state distribution of the OH (nu=0,J(OH)) products from dissociation is well characterized by a microcanonical statistical distribution constrained only by the energy available to products, 1304+/-38 cm(-1). This yields a 5667+/-38 cm(-1) [16.2(1) kcal mol(-1)] binding energy for tp-HOONO. An equivalent available energy and corresponding binding energy are obtained from the highest observed OH product state. Complementary high level ab initio calculations are carried out in conjunction with second-order vibrational perturbation theory to predict the spectroscopic observables associated with the OH overtone transition of tp-HOONO including its vibrational frequency, rotational constants, and transition dipole moment. The same approach is used to compute frequencies and intensities of multiple quantum transitions that aid in the assignment of weaker features observed in the OH overtone region, in particular, a combination band of tp-HOONO involving the HOON torsional mode.     

Fundamental vibrational frequencies and dominant resonances in methylamine isotopologues by ab initio and density functional theory methods

Ab initio and density functional theory (DFT) calculations were performed for obtaining fundamental vibrational frequencies of methylamine, CH3NH2, and its deuterated variants CH3ND2, CD3NH2, and CD3ND2. The calculations were carried out using the CCSD(T) coupled cluster approximation with cc-pVTZ and cc-pVQZ basis sets, and by the DFT method with the semiempirical hybrid functional B97-1 with polarization consistent pc-2 and pc-3 basis sets. Reasonable performance of the DFT harmonic and ab initio harmonic calculations was found, which improved considerably upon combination of the harmonic fundamental frequencies with anharmonic corrections from the smaller, pc-2, basis. The computed anharmonic fundamental frequencies of methylamine isotopologues agree very well with the experimental values and represent a useful tool for assignment and analysis of the dominant resonances.     

A bond-order analysis of the mechanism for hydrated proton mobility in liquid water

Bond-order analysis is introduced to facilitate the study of cooperative many-molecule effects on proton mobility in liquid water, as simulated using the multistate empirical valence-bond methodology. We calculate the temperature dependence for proton mobility and the total effective bond orders in the first two solvation shells surrounding the H(5)O(2) (+) proton-transferring complex. We find that proton-hopping between adjacent water molecules proceeds via this intermediate, but couples to hydrogen-bond dynamics in larger water clusters than previously anticipated. A two-color classification of these hydrogen bonds leads to an extended mechanism for proton mobility.