The dynamics of conformational isomerization in flexible biomolecules. I. Hole-filling spectroscopy of N-acetyl tryptophan methyl amide and N-acetyl tryptophan amide

The conformational isomerization dynamics of N-acetyl tryptophan methyl amide (NATMA) and N-acetyl tryptophan amide (NATA) have been studied using the methods of IR-UV hole-filling spectroscopy (HFS) and IR-induced population transfer spectroscopy (IR-PTS), which were developed for this purpose. Single conformations of these molecules were selectively excited in well-defined NH stretch fundamentals. This excess energy was used to drive conformational isomerization. By carrying out the infrared excitation early in a supersonic expansion, the excited molecules were recooled into their zero-point levels, partially refilling the hole created in the ground state population of one of the conformers, and creating gains in population in other conformers. These changes in population were detected using laser-induced fluorescence downstream in the expansion. In HFS, the IR wavelength is fixed and the UV laser tuned in order to determine where the population went following selective infrared excitation. In IR-PTS, the UV is fixed to monitor the population of a given conformation, and the IR is tuned to record the IR-induced changes in the population of the monitored conformer. Besides demonstrating the capability of the experiment to change the downstream conformational population distribution, the IR-PTS scans were used to extract two quantitative results: (i) The fractional populations of the conformers in the absence of the infrared, and (ii) the isomerization quantum yields for each of the six unique amide NH stretch fundamentals (three conformers each with two amide groups). The method for obtaining quantum yields is described in detail. In both NATMA and NATA, the quantum yields show modest conformational specificity, but only a hint of vibrational mode specificity. The prospects for the hole-filling technique for providing insight into energy flow in large molecules are discussed, leaving a more detailed theoretical modeling to the adjoining paper [Evans et al. J. Chem. Phys. 120, 148 (2004)].     

Analytical solution of the Schrödinger equation for a double minimum morse potential and application to intramolecular inversion

An exact solution is obtained for the one-dimensional time-independent Schrödinger equation with a symmetric double minimum potential constructed from two Morse potentials. This model potential is used to describe the inversion motions in NH₃, ND₃, and NT₃, and its adequacy is discussed.     

The dynamics of noble metal atom penetration through methoxy-terminated alkanethiolate monolayers

We have studied the interaction of vapor-deposited Al, Cu, Ag, and Au atoms on a methoxy-terminated self-assembled monolayer (SAM) of HS(CH(2))(16)OCH(3) on polycrystalline Au[111]. Time-of-flight secondary ion mass spectrometry, infrared reflection spectroscopy, and X-ray photoelectron spectroscopy measurements at increasing coverages of metal show that for Cu and Ag deposition at all coverages the metal atoms continuously partition into competitive pathways: penetration through the SAM to the S/substrate interface and solvation-like interaction with the -OCH(3) terminal groups. Deposited Au atoms, however, undergo only continuous penetration, even at high coverages, leaving the SAM "floating" on the Au surface. These results contrast with earlier investigations of Al deposition on a methyl-terminated SAM where metal atom penetration to the Au/S interface ceases abruptly after a approximately 1:1 Al/Au layer has been attained. These observations are interpreted in terms of a thermally activated penetration mechanism involving dynamic formation of diffusion channels in the SAM via hopping of alkanethiolate-metal (RSM-) moieties across the surface. Using supporting quantum chemical calculations, we rationalized the results in terms of the relative heights of the hopping barriers, RSAl > RSAg, RSCu > RSAu, and the magnitudes of the metal-OCH(3) solvation energies.     

Rapid determination of moisture/solids and fat in dairy products by microwave and nuclear magnetic resonance analysis

A peer-verified method is presented for the determination of percent moisture/solids and fat in dairy products by microwave drying and nuclear magnetic resonance (NMR) analysis. The method involves determining the moisture/solids content of dairy samples by microwave drying and using the dried sample to determine the fat content by NMR analysis. Both the submitting and peer laboratories analyzed various dairy products by using a CEM SMART system (moisture) and the SMART Trac (fat). The samples included milks, creams, ice cream mix, sour cream, yogurt, cream cheese, and mozzarella, Swiss, and cheddar cheeses. These samples represented a range of products that processors deal with in daily plant operations. The results were compared with moisture/solids and fat values derived from AOAC-approved methods.     

Dynamic nuclear polarization with biradicals

Dynamic nuclear polarization (DNP) experiments in rotating solids have been performed for the first time using biradicals rather than monomeric paramagnetic centers as polarizing agents. Specifically, two TEMPO radicals were tethered with a poly(ethylene glycol) chain of variable length where the number of glycol units was 2, 3, or 4. NMR experiments show that the signal observed in DNP experiments is approximately inversely proportional to the length of the chain. Thus, the shorter chain with larger electron dipolar couplings yields larger enhancements. The size of the enhancement is a factor of 4 larger than obtained with the identical concentration of monomeric nitroxide radicals achieving a value of approximately 175 for the n = 2 chain.     

The sulfhydryl groups in 4-amino- and 4-methoxy-thiophenol prefer the plane normal to the molecular frame

In 4-aminothiophenol and 4-methoxythiophenol the conformations of lowest energy are those in which the S—H bond lies in a plane perpendicular to the benzene plane. V₂ is 2.9 ± 0.4 and 1.9 ± 0.4 $\text{kJ}\text{mol}$, respectively. By way of contrast, V₂ in 4-nitrothiophenol is 9.0 ± 0.8 $\text{kJ}\text{mol}$ and the S—H bond prefers the molecular plane.     

P-chiral,monodentate ferrocenyl phosphines,novel ligands for asymmetric catalysis

Eight P-chiral monodentate ferrocenyl phosphines (1a-h) were prepared in high enantiomeric excess (>95% ee in most cases) by way of an ephedrine-based oxazaphospholidine borane complex. Primary alkyl, secondary alkyl, and substituted aromatic substituents were successfully introduced at the phosphorus center, along with ferrocenyl and phenyl groups, generating phosphines of the general structure FcP(Ph)(R) (Fc = ferrocenyl, R = aryl, alkyl). The synthetic route employed provides facile access to a previously undeveloped class of chiral monophosphines. These compounds were evaluated as ligands in asymmetric catalytic reductive coupling of alkynes and aldehydes and were found to provide the desired chiral allylic alcohols with good regioselectivity and ee in many cases and with complete (E)-selectivity (>98:2) in all cases.     

Polyol Process Synthesis of Monodispersed FePt Nanoparticles

Monodispersed FePt nanoparticles are synthesized by reduction of iron(II) acetylacetonate and platinum(II) acetylacetonate with 1,2-hexadecanediol as the reducing reagent in the polyol process. As-prepared FePt nanoparticles are chemically disordered with fcc phase. Transmission electron microscopy (TEM) images show a self-assembled particle array with an average particle size of 3 nm and a standard deviation about 10%. The transformation from chemically disordered fcc to chemically ordered L10 phase is achieved by annealing at 650 degrees C for 30 min in Ar atmosphere where the oxygen level is less than 1 ppm. Magnetic hysteresis measurements show a coercivity of 9.0 kOe at 293K, and 16.7 kOe at 5 K for the annealed FePt nanoparticles.     

Measurements and simulations of high energy O(3P) + Ar(1S) angular scattering: single and multi-collision regimes

We present differential angular cross sections for O(3P) + Ar(1S) scattering at collision energies near 90 kcal mol(-1) (approximately 8 km s(-1) relative velocity) from molecular beam measurements and high-level theoretical calculations. Beams of hyperthermal O(3P) are now being used to investigate novel gas-phase and gas-surface chemistries, and the comparison of theory and measurements on this simple system will be a stringent test of the experimental methodology. Potential energy curves were generated for O(3P) + Ar(1S) using a large cc-pVQZ basis within a valence multi-configuration plus perturbation theory treatment. These curves were then used in quantum scattering calculations to generate differential cross sections. Agreement between experiment and theory is excellent. In addition to these comparisons, the cross sections were used in direct simulation Monte Carlo calculations to investigate effects of increasing the Ar flux above the "single-collision" regime. As the Ar flux increases, the observed differential angular cross sections change in two ways. In addition to the main "single-scatter" peak along the incident O-atom beam direction, a secondary O-atom peak appears in the direction of the incident Ar beam, and the multiple-scattered O-atom translational energy starts to reflect the energy of the relatively slow moving Ar beam.     

Structural design criteria for anion hosts: strategies for achieving anion shape recognition through the complementary placement of urea donor groups

The arrangement of urea ligands about different shaped anions has been evaluated with electronic structure calculations. Geometries and binding energies are reported for urea complexes with Cl-, NO(3)-, and ClO(4)-. The results yield new insight into the nature of urea-anion interactions and provide structural criteria for the deliberate design of anion selective receptors containing two or more urea donor groups.