Fluorescence probes, solvation dynamics

The fluorescence lifetimes of the four natural DNA bases within the femtosecond range are too short to be useful as spectroscopic probes to characterize the solvation dynamics of DNA (31). The minor groove binder Hoechst 33258, the fluorescent adenine analog 2-Aminopurine (2Ap), and the base pair mimic coumarine 102-abasic site are better probes because they exhibit longer lifetimes and better solvatochromic properties. Of the two base pair analogs, the coumarine 102-abasic site base pair mimic disrupts the native DNA structure more than the adenine analog 2Ap. However, the spectroscopic characteristics of the former are superior to those of 2Ap for probing solvation dynamics. 

The solvation dynamics of the three different micelle solutions, TX, CTAB, and SDS, exhibit time constants of 550, 285, 180 ps, respectively. The time constants show that solvent motion in these solutions is significantly slower than bulk water. The authors attribute the observed time constants to water motion in the Stern layer of the micelles. This conclusion is supported by the steady-state fluorescence spectra of the C480 probe in these solutions. The spectra exhibit a significant blue shift with respect the spectrum of the dye in bulk water. This spectral blue shift is attributed to the probe being solvated in the Stern layer and experiencing an environment with a polarity much lower than that of bulk water. 

The central question in liquid-phase chemistry is How do solvents affect the rate, mechanism and outcome of chemical reactions Understanding solvation dynamics (SD), i.e., the rate of solvent reorganization in response to a perturbation in solute-solvent interachons, is an essential step in answering this central question. SD is most often measured by monitoring the time-evolution in the Stokes shift in the fluorescence of a probe molecule. In this experiment, the solute-solvent interactions are perturbed by solute electronic excitation, Sq Si, which occurs essenhaUy instantaneously on the time scale relevant to nuclear motions. Large solvatochromic shifts are found whenever the Sq Si electroiuc... 

An additional piece of information can be obtained by studying a synthetic compound derived from the GFP chromophore (1-28) fluorescing at room temperature. In Fig. 3a we show the chemical structure of the compound that we studied in dioxan solution by pump-probe spectroscopy. If we look at the differential transmission spectra displayed in Fig. 3b, we observed two important features a stimulated emission centered at 508 nm and a huge and broad induced absorption band (580-700 nm). Both contributions appear within our temporal resolution and display a linear behavior as a function of the pump intensity in the low fluences limit (<1 mJ/cm2). We note that the stimulated emission red shifts with two characteristic time-scales (500 fs and 10 ps) as expected in the case of solvation dynamics. We conclude that in the absence of ESPT this chromophore has the same qualitative dynamical behavior that we attribute to the relaxed anionic form. 

Time-resolved fluorescence spectroscopy of polar fluorescent probes that have a dipole moment that depends upon electronic state has recently been used extensively to study microscopic solvation dynamics of a broad range of solvents. Section II of this paper deals with the subject in detail. The basic concept is outlined in Figure 1, which shows the dependence of the nonequilibrium free energies (Fg and Fe) of solvated ground state and electronically excited probes, respecitvely, as a function of a generalized solvent coordinate. Optical excitation (vertical) of an equilibrated ground state probe produces a nonequilibrium configuration of the solvent about the excited state of the probe. Subsequent relaxation is accompanied by a time-dependent fluorescence spectral shift toward lower frequencies, which can be monitored and analyzed to quantify the dynamics of solvation via the empirical solvation dynamics function C(t), which is defined by Eq. (1). 

Femtosecond spectroscopy has an ideal temporal resolution for the study of ultrafast water motions from femtosecond to picosecond time scales [33-36]. Femtosecond solvation dynamics is sensitive to both time and length scales and can be a good probe for protein hydration dynamics [16, 37-50]. Recent femtosecond studies by an extrinsic labeling of a protein with a dye molecule showed certain ultrafast water motions [37-42]. This kind of labeling usually relies on hydrophobic interactions, and the probe is typically located in the hydrophobic crevice. The resulting dynamics mostly reflects bound water behavior. The recent success of incorporating a synthetic fluorescent amino acid into the protein showed another way to probe protein electrostatic interactions [43, 48]. 

Figure 19 shows the typical fluorescence transients of TBE from more than 10 gated emission wavelengths from the blue to the red side. At the blue side of the emission maximum, all transients obtained from four Trp-probes in the cubic phase aqueous channels drastically slow down compared with that of tryptophan in bulk water. The transients show significant solvation dynamics that cover three orders of magnitude on time scales from sub-picosecond to a hundred picoseconds. These solvation dynamics can be represented by three distinct decay components The first component occurs in about one picosecond, the second decays in tens of picoseconds, and the third takes a hundred picoseconds. The constmcted hydration correlation functions are shown in Fig. 20a with anisotropy dynamics in Fig. 20b. Surprisingly, three similar time scales (0.56-1.431 ps, 9.2-15 ps, and 108-140 ps) are obtained for all four Trp-probes, but their relative amplitudes systematically change with the probe positions in the channel. Thus, for the four Trp-probes studied here, we observed a correlation between their local hydrophobicity and the relative contributions of the first and third components from Trp, melittin, TME to TBE, the first components have contributions of 40%, 35%, 26%, and 17%, and the third components vary from 32%, to 38%, 43%, and 53%, respectively. The...

With the probe position moving toward the center of the aqueous channel, we detected more ultrafast and less slow solvation components. Note the negligible change of the quasi-bound water contributions, which indicates the complete detection of the two layers of quasi-bound water by all four Trp-probes. For TME, the fluorescence emission peak shifts to 338 nm, and its location moves to the lipid interface (Fig. 18). We did observe a smaller fraction of slow solvation dynamics decreasing from 53% in TBE to 43% in TME and an increase of the ultrafast component from 17% to 26%. The corresponding anisotropy dynamics drops from 726 to 440 ps with a less hindered local motion at the lipid interface. 

Solvation dynamics refers to the solvent reorganization or relaxation that accompanies the external excitation of a probe solute, usually a fluorescent organic dye or simply an excess solvated electron [55], Experimentally, the process of solvent reorganization can be time monitored by the time evolution of the fluorescence emission in time-dependent ultra-fast Stokes shift spectroscopy. 

A novel pump-damp-probe method (PDPM), which allows the characterization of solvation dynamics of a fluorescence probe not only in excited but also in the ground states has been recently developed (Changenet-Barret, 2000 and references therein). In PDPM, a pump produces a nonequilibrium population of the probe excited, which, after media relaxation, is simulated back to the ground states. The solvent relaxation of the nonequlibrium ground state is probed by monitoring with absorption technique. The inramolecular protein dynamics in a solvent-inaccessible region of calmodulin labeled with coumarin 343 peptide was examined by PDPM. In the pump-dump-probe experiments, part of a series of laser output pulses was frequency-doubled and softer beams were used as the probe. The delay of the probe with respect to the pump was fixed at 500 ps. 

The fluorescent probe 4-aminophthalimide (63) as well as its /V,/V-diethyl homomorph (89) were used by Samanta and coworkers148 149 to study the polarity and fluorescence dynamics in l-alkyl-3-methylimidazolium salts. The alkyl groups were variously ethyl, butyl and octyl and the anions were nitrate, tetrafluoroborate, hexafluorophosphate and bis(triflyl)imide. Similar conclusions were reached concerning the effects of alkyl chain length and anion as those obtained by Carmichael and Seddon142 using Nile Red. The solvation dynamics were found to depend on the viscosity of the media. Further use of 63 in l-butyl-3-methylimidazolium hexafluorophosphate was reported by Ingram and... 

Theoretical papers on effects directly observable in the very short time regime are notable in this years collection. The theory of femtosecond pump-probe spectroscopy of ultrafast Internal conversion processes in polyatomic molecules has been developed using the behaviour of the excited pyrazine molecule as an example . The solvation dynamics for an ion pair in a polar solvent can now be examined by the time dependence of fluorescence and by direct observation of photoinduced charge... 

Figure 1 Structure of a few fluorescence probes used in solvation dynamics studies.

The role of vibrational relaxation and solvation dynamics can be probed most effectively by fluorescence experiments, which are both time- and frequency-resolved,66-68 as indicated at the end of Sec. V. We have recently developed a theory for fluorescence of polar molecules in polar solvents.68 The solvaion dynamics is related to the solvent dielectric function e(co) by introducing a solvation coordinate. When (ai) has a Lorentzian dependence on frequency (the Debye model), the broadening is described by the stochastic model [Eqs. (113)], where the parameters A and A may be related to molecular... 

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