Absorption spectrum mechanism

The electromagnetic spectrum measures the absorption of radiation energy as a function of the frequency of the radiation. The loss spectrum measures the absorption of mechanical energy as a function of the frequency of the stress-strain oscillation. 

The resulting PL intensity depends on the absorption of the incident light and the mechanism of coupling between the initial excited states and the relaxed excited states that take part in emission. The spectrum is similar to an absorption spectrum and is useful because it includes higher excited levels that normally do not appear in the thermalized PL emission spectra. Some transitions are apparent in PLE spectra from thin layers that would only be seen in absorption data if the sample thickness were orders of magnitude greater. 

Flash photolysis of either H2S [66] or H2S2 [67, 68] in the gas phase at low partial pressures produces, inter aha, HS2- radicals which were detected by their UV absorption spectrum in the 307-380 nm region. In addition, singlet and triplet 2 molecules as well as SH radicals are formed from H2S2, and the following reaction mechanism has been proposed (photolysis in the region 200-300 nm in the presence of excess CO2) [67] ... 

The mechanism of the FOIST based selective control of IBr photodissociation has been further probed by the use of and V iii the TDWP calculation of IBr absorption spectrum (Fig. 5) and branching ratio (Fig. 6). 

The occurrence of energy transfer requires electronic interactions and therefore its rate decreases with increasing distance. Depending on the interaction mechanism, the distance dependence may follow a 1/r (resonance (Forster) mechanism) or e (exchange (Dexter) mechanisms) [ 1 ]. In both cases, energy transfer is favored by overlap between the emission spectrum of the donor and the absorption spectrum of the acceptor. 

The absorption and fluorescence spectra of a neat film made of RdB-den-drimer are shown in Fig. 2. The absorption spectrum in visible-wavelength region was similar to that obtained from a solution of RdB with a concentration less than 0.1 mmol/1. Interpretation of the fluorescence in terms of the Frank-Condon mechanism indicated that the core RdB chromophore behaved with a site-isolation effect and had little interaction with the neighboring chro-... 

The rhodamine B-bound complex of Ir1 (387) shows only minor alterations in the absorption spectrum of bound rhodamine B as opposed to free dye however, its fluorescence is strongly quenched.626 Fluorescence is intense when the rhodamine dye is attached to an Ir111 center. The authors conclude that the excited-state quenching mechanism is via electron transfer. 

NPQ (Rakhimberdieva et al. 2004) exactly matches the absorption spectrum of the carotenoid, 3 -hydrox yech i nenone (Polivka et al. 2005) in the OCP. The OCP is now known to be specifically involved in the phycobilisome-associated NPQ and not in other mechanisms affecting the levels of fluorescence such as state transitions or D1 damage (Wilson et al. 2006). Studies by immunogold labeling and electron microscopy showed that most of the OCP is present in the interthylakoid cytoplasmic region, on the phycobilisome side of the membrane, Figure 1.2 (Wilson et al. 2006). The existence of an interaction between the OCP and the phycobilisomes and thylakoids was supported by the co-isolation of the OCP with the phycobilisome-associated membrane fraction (Wilson et al. 2006, 2007). 

Another possible source of modification of the HBI optical properties arises from cis-trans (or, more properly, Z-E) isomerization around its exocyclic ethylene bridge (dihedral angle x as depicted in Fig. 3a) [74, 75]. The absorption spectrum of trans HBI in different solvents is red-shifted by 5-10 nm compared to that of the cis conformation [76]. While the trans conformation is thermodynamically unfavorable and contributes only a minor population at room temperature, cis-trans isomerization seems to take place regardless of the chromophore ionization state, and involves a relatively low energy barrier of about 50 kJ/mol [75], a value that appears significantly lower than initially predicted from quantum mechanics [77, 78]. 

FRET is a nonradiative process that is, the transfer takes place without the emission or absorption of a photon. And yet, the transition dipoles, which are central to the mechanism by which the ground and excited states are coupled, are conspicuously present in the expression for the rate of transfer. For instance, the fluorescence quantum yield and fluorescence spectrum of the donor and the absorption spectrum of the acceptor are part of the overlap integral in the Forster rate expression, Eq. (1.2). These spectroscopic transitions are usually associated with the emission and absorption of a photon. These dipole matrix elements in the quantum mechanical expression for the rate of FRET are the same matrix elements as found for the interaction of a propagating EM field with the chromophores. However, the origin of the EM perturbation driving the energy transfer and the spectroscopic transitions are quite different. The source of this interaction term... 

Figure 20. The (So —> S2) absorption spectrum of pyrazine for reduced three- and four-dimensional models (left and middle panels) and for a complete 24-vibrational model (right panel). For the three- and four-dimensional models, the exact quantum mechanical results (full line) are obtained using the Fourier method [43,45]. For the 24-dimensional model (nearly converged), quantum mechanical results are obtained using version 8 of the MCTDH program [210]. For all three models, the calculations are done in the diabatic representation. In the multiple spawning calculations (dashed lines) the spawning threshold 0,o) is set to 0.05, the initial size of the basis set for the three-, four-, and 24-dimensional models is 20, 40, and 60, and the total number of basis functions is limited to 900 (i.e., regardless of the magnitude of the effective nonadiabatic coupling, we do not spawn new basis functions once the total number of basis functions reaches 900).

Figure 21. The (So — S2) absorption spectrum of pyrazine for the reduced three-dimensional model using different spawning thresholds. Full line Exact quantum mechanical results. Dashed line Multiple spawning results for — 2.5, 5.0, 10, and 20. (All other computational details are as in Fig. 20.) As the spawning threshold is increased, the number of spawned basis functions decreases, the numerical effort decreases, and the accuracy of the result deteriorates (slowly). In this case, the final size of the basis set (at t — 0.5 ps) varies from 860 for 0 = 2.5 to 285 for 0 = 20.

The structure of HRP-I has been identified as an Fe(IV) porphyrin -ir-cation radical by a variety of spectroscopic methods (71-74). The oxidized forms of HRP present differences in their visible absorption spectra (75-77). These distinct spectral characteristics of HRP have made this a very useful redox protein for studying one-electron transfers in alkaloid reactions. An example is illustrated in Fig. 2 where the one-electron oxidation of vindoline is followed by observing the oxidation of native HRP (curve A) with equimolar H202 to HRP-compound I (curve B). Addition of vindoline to the reaction mixture yields the absorption spectrum of HRP-compound II (curve C) (78). This methodology can yield useful information on the stoichiometry and kinetics of electron transfer from an alkaloid substrate to HRP. Several excellent reviews on the properties, mechanism, and oxidation states of peroxidases have been published (79-81). 

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