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Infrared Multiple-photon Dissociation of Small Organic Sulfoxides

Infrared Multiple-photon Dissociation of Small Organic Sulfoxides
Author: Marko Peter Banjavčiʹc
Publisher:
Total Pages:
Release: 1999
Genre:
ISBN:

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The infrared multiple-photon dissociation of several small organic sulfoxides was studied in order to provide some insight in the dissociative product channels for this class of molecules. Vibrational excitation was achieved with a TEA CO2 laser and photofragments were identified with a laser ionized time of light mass spectrometer. A beam of 10.5 eV photons generated in a static xenon gas tripling cell from a tightly focused Nd:YAG third harmonic beam of light was used to ionize the molecules and fragment species. The photoionization mass spectra were found to contain fewer fragmentation species than the corresponding electron impact ionization mass spectra. Numerous product species were observed from skeletal rearrangement reactions despite the lower level of energy excitation from the photoionization process. The infrared photolysis wavelength dependence of dimethyl sulfoxide indicated that the maximum abundance for the major fragmentation species occurred at (or near) 1085.8 cm−1. The major products at 1085.8 cm−1 were [H3CSO]+ and [CH3]+. Minor products were also observed at a higher output power threshold like the skeletal rearrangement species [H3CS]+ and [OCH3]+. With the infrared photolysis wavelength dependence of methyl phenyl sulfoxide, the major product species ([CH3]+ and [OSCH3]+) had a maximum abundance near 1086.9 cm−1 . Small mass fragment species (like [HCS]+, [C4H5]+ and [C4H3]+) had a maximum abundance near 1080 cm−1 while large mass fragment species ([C6H8S]+ and [C6H5SO]+) had a maximum abundance that was further red-shifted (1058.9 and 1050.4 cm−1 , respectively). The photolysis at 1085.8 cm−1 generated the high mass fragment species ([C6H5SO]+, [C6H8S]+ and [C5H5S]+) at all CO2 laser output powers but a plateau in the abundance was observed at higher output powers. The smaller mass fragmentation species only appeared after a threshold power was surpassed. The maximum abundance for the various fragmentation species of sec-butyl methyl sulfoxide occurred near 1072 cm−1. The CO2 laser output power dependence for the formation of the butane, butyl and butene ions indicated all three were generated at all output powers with an abundance plateau or decline occurring at higher output powers. Fragmentation species were observed from the butyl group primary products with the power threshold increasing for the sequentially smaller secondary species.


Characterization of Several Small Biologically Relevant Molecules by Infrared Multiple Photon Dissociation Spectroscopy and Electronic Structure Calculations

Characterization of Several Small Biologically Relevant Molecules by Infrared Multiple Photon Dissociation Spectroscopy and Electronic Structure Calculations
Author: Sabrina M. Martens
Publisher:
Total Pages: 109
Release: 2011
Genre:
ISBN:

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Infrared multiple photon dissociation (IRMPD) spectroscopy has been coupled with electronic structure calculations in order to elucidate the structures of several small biological molecules including: uracil, 5-fluorouracil, 5-fluorocytosine, ferulic acid, and a number of their related analogs. IRMPD is a powerful technique, that when combined with electronic structure calculations can provide convincing evidence for the structural characterization of ions in the gas phase. Isomers of uracil and 5-fluorouracil (5-FU) have been characterized by calculations performed at the MP2(full)/aug-cc-pVTZ level of theory; however, infrared multiple photon dissociation spectroscopy experiments proved to be unsuccessful for these species. Geometry optimization and frequency calculations have isolated the dominant isomer(s) for neutral and deprotonated uracil and 5-fluorouracil, along with several cluster interactions involving water, methanol, ammonia, and methylamine. For both uracil and 5-FU, a single relevant neutral isomer was determined, with each isomer existing in the diketo, as opposed to the enol form. Following the deprotonation of this neutral isomer, both uracil and 5-FU were permitted to form anionic cluster ions with water, methanol, ammonia, or methylamine, and based on the relative Gibbs free energies (298 K) of the calculated isomers, relevant cluster interactions were determined. For each cluster, several sites of intramolecular interaction were found to exist; however, interaction at the site of deprotonation was the most favourable in every instance. Ionic hydrogen bond interactions have been found in several clusters formed by 5-fluorocytosine (5-FC).


Mass-selected Infrared Multiple-photon Dissociation as a Structural Probe of Gaseous Ion-molecule Complexes

Mass-selected Infrared Multiple-photon Dissociation as a Structural Probe of Gaseous Ion-molecule Complexes
Author: Richard Alexander Marta
Publisher:
Total Pages: 290
Release: 2009
Genre:
ISBN:

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Mass-selected infrared multiple photon spectroscopy (IRMPD), Fourier transform ion cyclotron resonance (FT-ICR) kinetic experiments, RRKM and electronic structure calculations have been performed in order to propose a complex mechanism involving the formation of the proton-bound dimer of water (H5O2) from 1,1,3,3-tetrafluorodimethyl ether. It has been found that the reaction is facilitated by a series of sequential exothermic bimolecular ion-molecule reactions. Evidence for the dominant mechanistic pathway involving the reaction of CF2H-O=CHF2, an ion of m/z 99, with water is presented. The primary channel occurs via nucleophilic attack of water on the ion of m/z 99 (CF2H-O=CHF), to lose formyl fluoride and yield protonated difluoromethanol (m/z 69). Association of a second water molecule with protonated difluoromethanol generates a reactive intermediate which decomposes via a 1,4-elimination to release hydrogen fluoride and yield the proton-bound dimer of water and formyl fluoride (m/z 67). The 1,4-elimination of hydrogen fluoride is found to be strongly supported by the results of both RRKM theory and electronic structure calculations. Lastly, the elimination of formyl fluoride occurs by the association of a third water molecule to produce H5O2 (m/z 37). The most probable isomeric forms of the ions with m/z 99 and 69 were found using IRMPD spectroscopy and electronic structure theory calculations. Thermochemical information for reactant, transition and product species was obtained using MP2/aug-cc-pVQZ//MP2(full)/6-31G(d) level of theory.


Infrared Multiple Photon Dissociation - Mass Spectrometry of Monosaccharides, Disaccharides, Trisaccharides and Their Derivatives for Isomeric Differentiation

Infrared Multiple Photon Dissociation - Mass Spectrometry of Monosaccharides, Disaccharides, Trisaccharides and Their Derivatives for Isomeric Differentiation
Author: Yanglan Tan
Publisher:
Total Pages: 145
Release: 2014
Genre:
ISBN:

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Sulfates which were structurally elucidated by IRMPD spectroscopy with a tunable OPO. The IRMPD spectra of monosaccharide derivative isomers displayed remarkable differences in the O-H and N-H stretching IR region. The results also suggested that gas-phase conformation, affected by ionization state or chemical modifications, exhibited diagnostic IR absorbances and characteristic photodissociation behavior. In Chapter 5, a top-down approach was employed to characterize isomeric variants of glucose-based trisaccharides. The trisaccharides were fragmented and mass selected to the key disaccharide fragments. The linkage and anomericity of the disaccharide substructures were then differentiated by wavelength-dependent IRMPD using the CO2 laser. On the basis of these results, variable-wavelength IRMPD provides a promising method to characterize carbohydrate structures and thus differentiate isomer variants by mass spectrometry.