Ion, molecular

When subjected to an electron bombardment whose energy level is much higher than that of hydrocarbon covalent bonds (about 10 eV), a molecule of mass A/loses an electron and forms the molecular ion, the bonds break and produce an entirely new series of ions or fragments . Taken together, the fragments relative intensities constitute a constant for the molecule and can serve to identify it this is the basis of qualitative analysis. 

The most familiar type of electrokinetic experiment consists of setting up a potential gradient in a solution containing charged particles and determining their rate of motion. If the particles are small molecular ions, the phenomenon is called ionic conductance, if they are larger units, such as protein molecules, or colloidal particles, it is called electrophoresis. 

Microwave spectra (giving pure rotational spectra) are especially usefiil for the detection of interstellar molecular ions (in some cases the microwave spectrum has first been observed in interstellar spectra ). 

Gruebele M H W 1988 Infrared Laser Spectroscopy of Molecular Ions and Clusters (Berkeley University of California)... 

SIMS is, strictly speaking, a destructive teclmique, but not necessarily a damaging one. In the dynamic mode, used for making concentration depth profiles, several tens of monolayers are removed per minute. In static SIMS, however, the rate of removal corresponds to one monolayer per several hours, implying that the surface structure does not change during the measurement (between seconds and minutes). In this case one can be sure that the molecular ion fragments are truly indicative of the chemical structure on the surface. 

Figure Bl.25.9(a) shows the positive SIMS spectrum of a silica-supported zirconium oxide catalyst precursor, freshly prepared by a condensation reaction between zirconium ethoxide and the hydroxyl groups of the support [17]. Note the simultaneous occurrence of single ions (Ff, Si, Zr and molecular ions (SiO, SiOFf, ZrO, ZrOFf, ZrtK. Also, the isotope pattern of zirconium is clearly visible. Isotopes are important in the identification of peaks, because all peak intensity ratios must agree with the natural abundance. In addition to the peaks expected from zirconia on silica mounted on an indium foil, the spectrum in figure Bl. 25.9(a)...

If the molecules could be detected with 100% efficiency, the fluxes quoted above would lead to impressive detected signal levels. The first generation of reactive scattering experiments concentrated on reactions of alkali atoms, since surface ionization on a hot-wire detector is extremely efficient. Such detectors have been superseded by the universal mass spectrometer detector. For electron-bombardment ionization, the rate of fonnation of the molecular ions can be written as... 

Mass spectrometric investigations of the ionosphere show an abundance of molecular ions such as NO and watercluster ions [4T ]. This is an indication of the result of ion-molecule reactions which change the chemical state of the ions in this plasma ... 

Molecular ions have an important role in charge carrier losses in the ionosphere. The probability of electron-atom-... 

While helium normally has a 0 valence, it seems to have a weak tendency to combine with certain other elements. Means of preparing helium difluoride have been studied, and species such as HeNe and the molecular ions He+ and He++ have been investigated. 

According to early theoretical calculations Kloptnan and I carried out in 1971, the parent molecular ions of alkanes, such as CH4, observed in mass spectrometry, also prefer a planar hypercarbon structure. 

The amino add analysis of all peptide chains on the resins indicated a ratio of Pro Val 6.6 6.0 (calcd. 6 6). The peptides were then cleaved from the resin with 30% HBr in acetic acid and chromatogra phed on sephadex LH-20 in 0.001 M HCl. 335 mg dodecapeptide was isolated. Hydrolysis followed by quantitative amino acid analysis gave a ratio of Pro Val - 6.0 5.6 (calcd. 6 6). Cycll2ation in DMF with Woodward s reagent K (see scheme below) yielded after purification 138 mg of needles of the desired cyc-lododecapeptide with one equiv of acetic add. The compound yielded a yellow adduct with potassium picrate, and here an analytically more acceptable ratio Pro Val of 1.03 1.00 (calcd. 1 1) was found. The mass spectrum contained a molecular ion peak. No other spectral measurements (lack of ORD, NMR) have been reported. For a thirty-six step synthesis in which each step may cause side-reaaions the characterization of the final product should, of course, be more elaborate. 

The main features are the molecular ions as the base peak and the M-t-1 ions arising from another species. For 2-aminothiazole the m/e 73 ion (M-HCN) is shifted to m/e 75 in the spectrum of the dideuteroamino derivative and, therefore, largely arises via rupture of 2-3 and 4-5 bonds (Scheme 18). This fragmentation process could involve the kind of intermediates postulated in photochemical rearrangements (see Chapter III, Section IX.3.B). The other fragments fit well the general pattern of fragmentation proposed by Clarke (136). 

During the course of biochemical studies (138). the mass spectrum of 2-acetamidothiazole was recorded its main peaks are the molecular ion (m/e= 142, relative intensity = 26%) and fragments 100 (100), 58 (2. 5), and 43 (39). For 2-acetamido-5-bromothiazole the main peak results again from the loss of C2H2O by the molecular ion. 2-AcetyIacet-amido-4-methylthiazole (2S) exhibits significant loss of from the... 

A protomeric equilibrium favors the acetamido rather than the acetimido form (105, 121). The parent molecular ion has been reported to be absent in the mass spectrum of 2-acylaminothiazoles (130). 

The 4-Hydroxy-thiazoles are characterized by infrared absorption near 1610 cm (KBr) (3) or 1620 to 16.S0cm (CCI4) (8), indicating a strongly polarized carbonyl group. H-5 resonates near 5.6 ppm in the NMR spectrum like similar protons in other mesoionic compounds (3). Two fragmentations of the molecular ion are observed in the mass spectra. The first involves rupture of the 1,2 and 3,4 bonds with loss of C2R 0S . In the second, the 1,5 and 3,4 bonds are cleaved with elimination of C2R 0. ... 

The mass spectra of more substituted thiazoles, or those with larger alkyl groups are more complex and involve other fragmentation patterns (117, 118, 374). The molecular ion is still abundant but decreases with increasing substitution past the ethyl group. 

For 4,5-dialkylthiazoles, the molecular ion decomposes by two competitive pathways, either loss of HCN followed by elimination of the radical R in the position /3 to the double bond of the resulting substituted thiirene, or by p cleavage followed by elimination of HCN (119). 

The mass spectra of phenylthiazoles are characterized by the presence of intense molecular ion peaks, due to the aromatic nature of the molecules, which represent 35, 41, and 44% of the total ionization for 2-, 4-, and 5-phenylthiazoles, respectively. 

The spectra of alkylarylthiazoles generally possess fragmentation patterns similar to those previously mentioned for alkyl- and arylthiazoles. In this case, scission of the S-Cj and C3-C4 bonds of the thiazole ring can occur in ion fragments as well as in the molecular ion (124). 

We say the molecule AB has been ionized by electron impact The species that results called the molecular ion, is positively charged and has an odd number of electrons—it IS a cation radical The molecular ion has the same mass (less the negligible mass of a single electron) as the molecule from which it is formed... 

FIGURE 13 40 The mass spectrum of benzene The peak at miz = 78 corresponds to the CgHg molecular ion... 

The mass spectrum of benzene is relatively simple and illustrates some of the mfor matron that mass spectrometry provides The most intense peak m the mass spectrum is called the base peak and is assigned a relative intensity of 100 Ion abundances are pro portional to peak intensities and are reported as intensities relative to the base peak The base peak m the mass spectrum of benzene corresponds to the molecular ion (M" ) at miz = 78... 

Benzene does not undergo extensive fragmentation none of the fragment ions m its mass spectrum are as abundant as the molecular ion... 

Not only the molecular ion peak but all the peaks m the mass spectrum of benzene are accompanied by a smaller peak one mass unit higher Indeed because all organic com pounds contain carbon and most contain hydrogen similar isotopic clusters will appear m the mass spectra of all organic compounds... 

Knowing what to look for with respect to isotopic clusters can aid in interpreting mass spectra How many peaks would you expect to see for the molecular ion in each of the following compounds At what m/z values would these peaks appear (Disregard the small peaks due to and )... 

Unlike the case of benzene in which ionization involves loss of a tt electron from the ring electron impact induced ionization of chlorobenzene involves loss of an elec tron from an unshared pair of chlorine The molecular ion then fragments by carbon-chlorine bond cleavage... 

Some classes of compounds are so prone to fragmentation that the molecular ion peak IS very weak The base peak m most unbranched alkanes for example is m/z 43 which IS followed by peaks of decreasing intensity at m/z values of 57 71 85 and so on These peaks correspond to cleavage of each possible carbon-carbon bond m the mol ecule This pattern is evident m the mass spectrum of decane depicted m Figure 13 42 The points of cleavage are indicated m the following diagram... 

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