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Biomedical subjects

R J Saykally

Publications and source records attributed to R J Saykally.

At least 37 records · Page 2Linked to original sources

Simulated infrared emission spectra of highly excited polyatomic molecules: a detailed model of the PAH-UIR hypothesis.

A detailed description of the polycyclic aromatic hydrocarbon (PAH)/unidentified infrared band (UIR) mechanism is presented in which experimental spectral bandshape functions are used to simulate IR emission spectra for individual molecules. These spectra are additively superimposed to produce a conglomerate spectrum representative of a family of PAH molecules. Ab initio vibrational frequencies and intensities for nine PAHs (neutral and cationic) as large as ovalene are used in conjunction with measured bandshape and temperature-dependent redshift data to simulate the UIR bands. The calculated spectra of cations provide a closer match to the UIRs than do those of the neutrals. However, the PAH cations used in the simulations fail to reproduce the details of the UIR emission spectra. The discrepancies are potentially alleviated if both larger PAHs and a greater number of PAHs were included in the simulation.

Astronomical Phenomena↗

Far-infrared VRT spectroscopy of two water trimer isotopomers: vibrationally averaged structures and rearrangement dynamics.

We report the measurement of far-infrared vibration-rotation tunnelling parallel bands of two partially deuterated water trimer isotopomers: (D2O)2DOH and (H2O)2DOH at 97.2607 cm-1 and approximately 86 cm-1, respectively. The hydrogen bond rearrangement dynamics of the two mixed trimers can be described by the simplified molecular symmetry G8, which accounts for both the flipping and bifurcation tunnelling motions previously established for (H2O)3 and (D2O)3. The observed donor tunnelling quartet, rather than triplet, splitting indicates that the two homogeneous monomers (D2O or H2O) in each mixed trimer experience slightly different environments. Vibrationally averaged structures of (H2O)3, (D2O)3, and (D2O)2DOH were examined in a Monte Carlo simulation of the out-of-plane flipping motions of the free atoms. The simulation addresses both the symmetric top behaviour and the negative zero-point inertial defect for (H2O)3 and (D2O)3, which were insufficiently counted in all previous structure models. The average ground state O--O separations, which are correlated to other angular coordinates, were determined to be 2.84 +/- 0.01 angstroms for all three species. The simulated difference in hydrogen bond nonlinearity also supports the inequivalency of the two homogeneous monomers. The structural simulation shows that the unique H in (D2O)2DOH is free, while a torsional analysis suggests the unique D in (H2O)2DOH is bound within the cyclic ring. Both bands can be assigned to the pseudorotational transitions which correlate to those found in the pure trimers.

Chemistry, Physical↗

Infrared laser spectroscopy of jet-cooled carbon clusters: the nu 5 band of linear C9.

The nu 5 antisymmetric stretching vibration of 1 sigma+g C9 has been observed using direct infrared diode laser absorption spectroscopy of a pulsed supersonic cluster beam. Twenty-eight rovibrational transitions measured in the region of 2079-2081 cm-1 were assigned to this band. A combined least squares fit of these transitions with previously reported nu 6 transitions yielded the following molecular constants for the nu 5 band: nu 0 = 2 079.673 58(17) cm-1, B"= 0.014 321 4(10) cm-1, and B'=0.014 288 9(10) cm-1. The IR intensity of the nu 5 band relative to nu 6 was found to be 0.108 +/- 0.006. Theoretical predictions for the relative intensities vary widely depending upon the level of theory employed, and the experimental value reported here is in reasonable agreement only with the result obtained from the most sophisticated ab initio calculation considered (CCSD).

Astronomical Phenomena↗

Infrared emission spectra of candidate interstellar aromatic molecules.

Interstellar dust is responsible, through surface reactions, for the creation of molecular hydrogen, the main component of the interstellar clouds in which new stars form. Intermediate between small, gas-phase molecules and dust are the polycyclic aromatic hydrocarbons (PAHs). Such molecules could account for 2-30% of the carbon in the Galaxy, and may provide nucleation sites for the formation of carbonaceous dust. Although PAHs have been proposed as the sources of the unidentified infrared emission bands that are observed in the spectra of a variety of interstellar sources, the emission characteristics of such molecules are still poorly understood. Here we report laboratory emission spectra of several representative PAHs, obtained in conditions approximating those of the interstellar medium, and measured over the entire spectral region spanned by the unidentified infrared bands. We find that neutral PAHs of small and moderate size can at best make only a minor contribution to these emission bands. Cations of these molecules, as well as much larger PAHs and their cations, remain viable candidates for the sources of these bands.

Extraterrestrial Environment↗

Cavity ringdown laser absorption spectroscopy and time-of-flight mass spectroscopy of jet cooled platinum silicides.

The cavity ringdown technique (CRLAS) has been employed to measure the gas phase absorption spectrum of the platinum silicide molecule in the 350 nm region. All nine of the measured rovibronic bands are assigned to a single 1 sigma-1 sigma electronic transition, with a ground state vibrational frequency of omega "e = 549.0(3) cm-1, and a bond length of r"0 = 2.069(1) angstroms. The results of this study are compared with experimental data for the coinage metal silicides. Additionally, time-of-flight mass spectrometric results indicate that a variety of polyatomic metal silicides are formed in our molecular jet expansion.

Lasers↗

Quantifying hydrogen bond cooperativity in water: VRT spectroscopy of the water tetramer.

Measurement of the far-infrared vibration-rotation tunneling spectrum of the perdeuterated water tetramer is described. Precisely determined rotational constants and relative intensity measurements indicate a cyclic quasi-planar minimum energy structure, which is in agreement with recent ab initio calculations. The O-O separation deduced from the data indicates a rapid exponential convergence to the ordered bulk value with increasing cluster size. Observed quantum tunneling splittings are interpreted in terms of hydrogen bond rearrangements connecting two degenerate structures.

Deuterium Oxide↗

Vibration--rotation--tunneling dynamics calculations for the four-dimensional (HCl)2 system: a test of approximate models.

Several commonly used approximate methods for the calculation of vibration--rotation--tunneling spectra for (HCl)2 are described. These range from one-dimensional models to an exact coupled four-dimensional treatment of the intermolecular dynamics. Two different potential surfaces were employed--an ab initio and our ES1 experimental surface (determined by imbedding the four-dimensional calculation outlined here in a least-squares loop to fit the experimental data, which is described in the accompanying paper [J. Chem. Phys. 103, 933 (1995)]. The most important conclusion deduced from this work is that the validity of the various approximate models is extremely system specific. All of the approximate methods addressed in this paper were found to be sensitive to the approximate separability of the radial and angular degrees of freedom, wherein exists the primary difference between the two potentials. Of particular importance, the commonly used reversed adiabatic angular approximation was found to be very sensitive to the choice for fixed R; an improper choice would lead to results very much different from the fully coupled results and perhaps to false conclusions concerning the intermolecular potential energy surface.

Chemistry, Physical↗

Determination of the intermolecular potential energy surface for (HCl)2 from vibration--rotation--tunneling spectra.

An accurate and detailed semiempirical intermolecular potential energy surface for (HCl)2 has been determined by a direct nonlinear least-squares fit to 33 microwave, far-infrared and near-infrared spectroscopic quantities using the analytical potential model of Bunker et al. [J. Mol. Spectrosc. 146, 200 (l99l)] and a rigorous four-dimensional dynamical method (described in the accompanying paper). The global minimum (De= -692 cm-1) is located near the hydrogen-bonded L-shaped geometry (R=3.746 angstroms, theta1=9 degrees, theta2=89.8 degrees, and phi=180 degrees). The marked influence of anisotropic repulsive forces is evidenced in the radial dependence of the donor-acceptor interchange tunneling pathway. The minimum energy pathway in this low barrier (48 cm-1) process involves a contraction of 0.1 angstroms in the center of mass distance (R) at the C2h symmetry barrier position. The new surface is much more accurate than either the ab initio formulation of Bunker et al. or a previous semiempirical surface [J. Chem. Phys. 78, 6841 (1983)].

Chemistry, Physical↗

Characterization of silicon-carbon clusters by infrared laser spectroscopy. The nu 1 band of SiC4.

The nu 1 fundamental vibration of linear SiC4 has been observed by infrared diode laser spectroscopy of a supersonic cluster beam. Twenty-four rovibrational transitions were measured in the spectral region of 2094.6 to 2097.1 cm-1, the rotational temperature was 10 K. A combined least-squares fit of these transitions with previously reported microwave data yielded the following molecular constants: nu 1 = 2095.45806(37) cm-1, B" = 0.051161131(52) cm-1, and B' = 0.0509157(96) cm-1. These results are compared to vibrational spectroscopy measurements of SiC4 trapped in a solid Ar matrix and to ab initio calculations.

Argon↗

Characterization of silicon-carbon clusters by infrared laser spectroscopy: the nu 3(sigma u) band of linear Si2C3.

The nu 3(sigma u) fundamental vibration of 1 sigma g+ Si2C3 has been observed using a laser vaporization-supersonic cluster beam-diode laser spectrometer. Forty rovibrational transitions were measured in the range of 1965.8 to 1970.9 cm-1 with a rotational temperature of 10-15 K. A least-squares fit of these transitions yielded the following molecular constants: nu 3(sigma u)=1968.188 31(18) cm-1, B"=0.031 575 1(60) cm-1, and B'=0.031 437 4(57) cm-1. These results are in excellent agreement with recent Fourier transform infrared (FTIR) measurements of Si2C3 trapped in a solid Ar matrix [J. Chem. Phys. 100, 181(1994)] and with ab initio calculations [J. Chem. Phys. 100, 175 (1994)] which suggest cumulenic-like bonding for Si2C3, analogous to the isovalent C5 carbon cluster.

Argon↗

The unidentified interstellar infrared bands: PAHs as carriers?

Infrared emission spectra of gas-phase naphthalene and pyrene have been measured in the range of 3 to 7.5 micrometers with ultraviolet laser desorption-excitation and a spectroscopic technique featuring single-photon counting in the infrared. The spectra were compared with the unidentified infrared emission bands that are observed in many astronomical objects. Marked discrepancies between those observations and the laboratory emission spectra in the wavelengths and relative intensities of principal spectral features led to the conclusion that small neutral unsubstituted polycyclic aromatic hydrocarbons cannot be the carriers of the unidentified infrared emission bands.

Astronomy↗

Close coupling results for inelastic collisions of NH3 and Ar. A stringent test of a spectroscopic potential.

We have calculated state-to-state total cross sections for rotational excitation and inversion of NH3 by collisions with Ar using the close coupling method. The Ar-NH3 interaction potential has been obtained from a fit to the spectrum of this van der Waals molecule. The calculated cross sections agree to within about 30% with the measured values; the estimated error in the latter is 10% to 20%.

Ammonia↗

Infrared laser spectroscopy of the linear C13 carbon cluster.

The infrared absorption spectrum of a linear, 13-atom carbon cluster (C13) has been observed by using a supersonic cluster beam-diode laser spectrometer. Seventy-six rovibrational transitions were measured near 1809 wave numbers and assigned to an antisymmetric stretching fundamental in the 1 sigma g+ ground state of C13. This definitive structural characterization of a carbon cluster in the intermediate size range between C10 and C20 is in apparent conflict with theoretical calculations, which predict that clusters of this size should exist as planar monocyclic rings.

Astronomical Phenomena↗

Infrared laser spectroscopy of jet-cooled carbon clusters: the bending dynamics of linear C9.

We report improved measurements for the nu 6 antisymmetric stretch fundamental and observation of the (nu 6 + nu 15)-nu 15 and (nu 6 + 2 nu 15)-2 nu 15 hot bands of the linear C9 carbon cluster by direct absorption diode laser spectroscopy of a supersonic carbon cluster beam. Analysis of these bands characterizes C9 as a semirigid molecule with a bending potential similar to that of C5 and further evidences the alternation in degree of rigidity of linear carbon clusters with the g-u symmetry of the HOMO.

Astronomical Phenomena↗