Photochrome-labeling method in study of dynamics of biological systems

Stilbene Molecular Probes as Potential Materials for Bioengineering: Real Time Analysis of Antioxidants and Nitric Oxide, Immunoassay in Solution and Biomembranes Fluidity

A series of fluorescent methods of analysis and investigation of system based on the use of stilbenes and potentially important in biochemistry, biophysics, biotechnology, and biomedicine were proposed and developed. In these methods, two new types of stilbene molecular probes have been used: (i) fluorescent photochrome molecules and (ii) super molecules containing fluorescent and fluorescent quenching segments. These methods utilize the following photochemical and photophysical phenomena: the fluorescence and phosphorescence quenching, photochrome photoisomerization, and triplet–triplet and singlet–singlet energy transfer. The fluorescence properties of the new probes were intensively exploited as the basis of several methodologies that include a real-time analysis of nitric oxide, immunoassay in solution, investigation of molecular dynamics of biomembranes in a wide range characteristic times, and characterization of sensors for antibodies. These techniques may be adapted to fibro-optic sensoring.

Protein diffusion probed by the transient grating method with a new type of photochromic molecule

A new type of photochromic molecule that can be used for diffusion coefficient (D) measurements of various proteins in solution is described. The absorption spectrum of this molecule is changed upon photoexcitation by the trans-cis isomerization reaction. Target proteins were labeled by this photochromic molecule in the dark and the translational motion of the proteins was detected by the transient grating (TG) method. The TG signal was simple enough to determine D accurately and was stable even for long-time irradiation by the laser light. The TG method using this probe molecule improves many drawbacks of the other techniques.

Molecular dynamics investigation of an antibody binding site by the fluorescence-photochrome method

A combined fluorescence-photochrome approach was used for investigation of the molecular dynamics antiDNP antibody binding site and its cavity. A 4-(N-2,4-dinitrophenylamino)-4'-(N,N'-dimethylamino)stilbene (StDNP) fluorescence DNP analog was incorporated into the antibody binding site. This was followed by measurements of fluorescence and photochrome parameters such as the StDNP excitation and emission spectra, fluorescence lifetime, steady-state and time-resolved fluorescence polarization, kinetics of trans-cis and cis-trans photoisomerization, and fluorescence quenching by nitroxide radicals freely diffused in solution. In parallel, computational modeling studies on the location and dynamics of DNP/TEMPO spin-label (NslDNP) and StDNP guests within a model of the binding site were performed. When all the experimental evidence is considered (including data from the antibody X-ray study), one can conclude that wobbling of the Trp 91 L/Trp 96 H binding-site.bound-hapten moiety (StDNP), can be responsible for the label's nanosecond dynamics monitored by fluorescence polarization techniques. A similar conclusion may be reached as a result of data analysis on NslDNP mobility within the antibody binding site. The mobility of Trp 91 L and Trp 96 H moieties provides the induced fit needed for effective stacking and release of the DNP epitope. Analysis of the above-mentioned data allows one to explore the mechanism of the probe's movement within the binding site and enables one to discuss the local dynamics of the binding site region. The combined fluorescence-photochrome approach can be used for investigation of local medium molecular dynamics in the immediate vicinity of specific sites of proteins and nucleic acids, as well as for other biologically important structures and synthetic analogues.

Stilbene photochrome-fluorescence-spin molecules: covalent immobilization on silica plate and applications as redox and viscosity probes

We report herein on the development of a new photochrome-fluorescence-spin method for the quantitative analysis of the redox status and viscosity of a medium. The method of the viscosity measurement is based on the use of double fluorescence-nitroxide molecules. In such hybrid compounds the nitroxide moiety quenches the fluorescence of the fluorophore (stilbene moiety). The reduction of nitroxide by an antioxidant (ascorbic acid) causes a rise of fluorescence of the fluorophore. The rate constant of the stilbene fragment photoisomerization in such systems is dependent upon the viscosity of the media. The synthesized dual stilbene-nitroxide probe was covalently immobilized onto the surface of a quartz plate as an eventual fiber-optic sensor. The immobilization procedure included a cyanogen bromide surface activation followed by smoothing with a protein tether. The rate of fluorescence change was monitored in aqueous-glycerol solutions of different viscosities and content of ascorbic acid. Good correlation was found: (a) between the concentration of ascorbic acid in the sample and the rate of fluorescence increase due to the reduction of the nitroxide moiety, and (b) between the rate constant of photoisomerization and the viscosity of the media. Appropriate calibration would make the determination of the viscosity of a media possible (in a range 1-500 cP), as well as ascorbate content, in a range (1-9) x 10(-4) M, with fast single measurement.

Intramolecular dynamics and conformational transition in proteins studied by biophysical labelling methods. Common and specific features of proteins from thermophylic micro-organisms

A general survey is carried out on the theoretical grounds for methods of spin, luminescence and Mössbauer labels, as well as their application in the study of protein intramolecular dynamics. When combined, these methods allow the protein dynamics to be investigated within a wide range of correlation times (tau c = 10(2) - 10(-10) s) and amplitudes. The purposeful application of the methods to various proteins at different temperatures (30-330 K), water content, substrate addition, etc., revealed a number of dynamical processes and conformational transitions in proteins. The experiments indicated correlations between the local segmental mobility of protein globules in a nanosecond temporal scale and biochemical reactions, such as long-distance electron transfer, hydrolysis and photoreactions. The biophysical labelling methods results were analysed together with the data on dynamics obtained using complementary physico-chemical methods and theoretical calculations. Special emphasis is given to recent results on proteins from thermophylic micro-organisms. The mechanisms of protein intramolecular dynamics and their role in the stability and functions of proteins and enzymes are discussed.

Novel fluorescence-photochrome labeling method in the study of biomembrane dynamics

A novel photochrome-fluorescence method (PFLM) based on monitoring fluorescence parameters and kinetics of photochrome photoisomerization of para-substituted stilbenes (PSS) has been proposed. It was shown that PSS exhibits fluorescence characteristics which are similar to ones of typical membrane fluorescence probes such as diphenylhexatriene (DPH). A study of kinetics of PSS trans-cis and cis-trans photoisomerization makes it possible to estimate, under certain conditions, the rotational correlation time of the stilbene fragments in the excited state of PSS for the fixed angle 180 degrees. In viscous media this process is a rate-determining stage. Taken together, the both techniques, fluorescence and photochrome, make it possible to establish a detailed mechanism and measure quantitative parameters of stilbene probe (PSS) mobility in a membrane. The PFLM was applied to the study of E. coli membrane dynamics.