Solvation dynamics in protein environments: comparison of fluorescence upconversion measurements of coumarin 153 in monomeric hemeproteins with molecular dynamics simulations

The complexes of the fluorescence probe coumarin 153 with apomyoglobin and apoleghemoglobin are used as model systems to study solvation dynamics in proteins. Time-resolved Stokes shift experiments are compared with molecular dynamics simulations, and very good agreement is obtained. The solvation of the coumarin probe is very rapid with approximately 60% occurring within 300 fs and is attributed to interactions with water (or possibly to the protein itself). Differences in the solvation relaxation (or correlation) function C(t) for the two proteins are attributed to differences in their hemepockets.     

The complex of apomyoglobin with the fluorescent dye coumarin 153

Understanding a protein's dielectric response requires both a theoretical model and a well-defined experimental system. The former has already been proposed by Song (J. Chem. Phys. 116, 9359 [2002]). We suggest that the latter is provided by the complex of coumarin 153 (C153) with apomyoglobin (ApoMb). C153 has been exhaustively studied and has proven to be an excellent probe of the solvation dynamics of polar solvents. Myoglobin is one of the most thoroughly studied proteins. Myoglobins from a wide range of species have been subject to X-ray structural analysis and site-directed mutagenesis. Here, we demonstrate the existence of a robust C153-apomyglobin system by means of molecular dynamics simulations, equilibrium binding studies using a Job's plot and capillary electrophoresis, circular dichroism and time-resolved fluorescence. The reorganization energy of C153 bound to ApoMb is compared with that of C153 in bulk solvent using the method of Jordanides et al. (J. Phys. Chem. B 103, 7995 [1999]).     

Separation and analysis of dynamic Stokes shift with multiple fluorescence environments: coumarin 153 in bovine beta-lactoglobulin A

We use time-dependent fluorescence Stokes shift (TDFSS) information to study the fluctuation rates of the lipocalin, beta-lactoglobulin A in the vicinity of an encapsulated coumarin 153 molecule. The system has three unique dielectric environments in which the fluorophore binds. We develop a method to decompose the static and dynamic contributions to the spectral heterogeneity. This method is applied to temperature-dependent steady-state fluorescence spectra providing us with site-specific information about thermodynamic transitions in beta-lactoglobulin. We confirm previously reported transitions and discuss the presence of an unreported transition of the central calyx at 18 degrees C. Our method also resolves the contributions to the TDFSS from the coumarin 153 centrally located in the calyx of beta-lactoglobulin despite overlapping signals from solvent exposed dyes. Our experiments show dynamics ranging from 3-1200 ps. The analysis shows a decrease in the encapsulated dye's heterogeneity during the relaxation, which is taken as evidence of the breakdown of linear response.     

Exploring the picosecond time domain of the solvation dynamics of coumarin 153 within beta-cyclodextrins

We report molecular dynamics simulation results of equilibrium and dynamical characteristics pertaining to the solvation of the dye coumarin 153 (C153) trapped within hydrophobic cavities of di- and trimethylated beta-cyclodextrins (CD) in aqueous solutions. We found that stable configurations of the encapsulated probe are characterized by a slanted docking, in which the plane of the C153 lies mostly parallel to one of the glucose units of the CD. "In and out" dynamical modes of the encapsulated probe present very small amplitudes. The rotational dynamics of the trapped coumarin can be cast in terms of a simple model that includes diffusive motions within a local restrictive environment coupled to the overall rotational motion of the CD. We have examined the early stages of the solvation response of the environment following a vertical excitation of the probe. Regardless of the degree of CD methylation, the water dynamical response seems to be completed within 2-3 ps and does not differ substantially from that observed for nonencapsulated probes. The CD response is characterized by a single, subpicosecond relaxation that involves intramolecular motions. We also explored dynamical modes that could account for the recently reported persistence of Stokes shifts in the nanosecond time domain. In all cases, the only sources of ultraslow dynamics that we detected were those associated with gauche-trans interconversions in primary hydroxyl chains of the CD, which do not seem to be directly connected to the electronic excitation of the probe.     

Microviscosity in multiple regions of complex aqueous solutions of poly(ethylene oxide)-poly(propylene oxide)-poly(ethylene oxide)

Aqueous poly(ethylene oxide)-poly(propylene oxide)-poly(ethylene oxide) (PEO109-PPO41-PEO109) copolymers are nonionic surfactants that self-organize to form aggregate structures with increasing temperature or concentration. We have studied two concentrations over a range of temperatures so that the copolymers are in one of three microphases: unimers, micelles, or hydrogels formed from body centered cubic aggregates of micelles. Three different coumarin dyes were chosen based on their hydrophobicity so that different aggregate regions could be probed independently-water insoluble coumarin 153 (C153), hydrophobic coumarin 102 (C102), and the hydrophilic sodium carboxylate form of coumarin 343 (C343-). Fluorescence anisotropy experiments provide detailed information on the local microviscosity. C153 experiences a fourfold increase in reorientation time and hence microviscosity with increasing temperature through the microphase transition from unimers to micelles. C102 also shows an increase in microviscosity with temperature but smaller in magnitude and with the microphase transition shifted to higher temperature relative to C153. C343- shows only a slight sensitivity to the microphase transition. For any of the three coumarin probes, fluorescence anisotropies do not show any correlation with the microphase transition to form cubic hydrogels.     

Solvation dynamics in acetonitrile: a study incorporating solute electronic response and nuclear relaxation

The solvent reorganization process after electronic excitation of a polar solute in a polar solvent such as acetonitrile is related mainly to the time evolution of the solute-solvent electrostatic interaction. Modern laser-based techniques have sufficient time resolution to follow this decay in real time, providing information to be confirmed and interpreted by theories and models. We present here a study aimed at the investigation of the different steps involved in the process taking place after a vertical S(0) --> S(1) excitation of a large size chromophore, coumarin 153 (C153), in acetonitrile, from both the solute and the solvent points of view. To do this, we use accurate quantum mechanical calculations for the solute properties within the polarizable continuum model (PCM) and classical molecular dynamics (MD) simulations, both equilibrium and nonequilibrium, for C153 in the presence of the solvent. The geometry of the solute is allowed to change in order to study the role of internal motions in the time-dependent solvation process. The solvent response function has been obtained from the simulation data and compared to experiment, while the comparison between equilibrium and nonequilibrium MD results for the solvation response confirms the validity of the linear response approximation in the C153-acetonitrile system. The MD trajectories have also been used to monitor the structure of the solvation shell and to determine its change in response to the change in the solute partial charges.     

1,1-Dimethylnaphthalenon-dimers as photocleavable linkers with improved two-photon-absorption efficiency and hydrolytic stability

Coumarins are well known for reversible dimer formation with wavelengths greater than 300 nm and dimer cleavage below 300 nm. In a photochemical [2+2]-cycloaddition a cyclobutane ring is formed. Formation as well as cleavage of the cyclobutane ring may be accomplished by a single-photon-absorption as well as by a two-photon-absorption triggered reaction. The coumarin system is of interest for various kinds of applications, ranging from drug delivery for ophthalmic implants to optical data storage. However, the two-photon-absorption coefficient of coumarin dimers is rather low falling in the range of 1 GM in the visible range. We present here a substitute for the coumarin dimer system which not only has an about one order of magnitude higher two-photon-absorption coefficient, but also overcomes several other problems of the coumarin dimer system. Coumarines and in particular coumarine dimers have a very limited solubility in common solvents and are susceptible to hydrolysis of the lactone ring, which leads to an undesired complexity in the photochemical cleavage reaction. The 1,1-dimethylnaphtalenone dimers introduced here show excellent stability, lead only to a single cleavage product, and have a two-photon-absorption coefficient of about 10 GM at 532 nm. These properties make the 1,1-dimethylnaphtalenone dimers a superior substitute over the well-known coumarin dimers in particular in applications where two-photon-absorption induced photocleavage is required.     

Light Harvesting and White‐Light Generation in a Composite of Carbon Dots and Dye‐Encapsulated BSA‐Protein‐Capped Gold Nanoclusters

Several strategies have been adopted to design an artificial light‐harvesting system in which light energy is captured by peripheral chromophores and it is subsequently transferred to the core via energy transfer. A composite of carbon dots and dye‐encapsulated BSA‐protein‐capped gold nanoclusters (AuNCs) has been developed for efficient light harvesting and white light generation. Carbon dots (C‐dots) act as donor and AuNCs capped with BSA protein act as acceptor. Analysis reveals that energy transfer increases from 63 % to 83 % in presence of coumarin dye (C153), which enhances the cascade energy transfer from carbon dots to AuNCs. Bright white light emission with a quantum yield of 19 % under the 375 nm excitation wavelength is achieved by changing the ratio of components. Interesting findings reveal that the efficient energy transfer in carbon‐dot–metal‐cluster nanocomposites may open up new possibilities in designing artificial light harvesting systems for future applications.     

Interaction of ionic liquid with water with variation of water content in 1-butyl-3-methyl-imidazolium hexafluorophosphate ([bmim][PF6])/TX-100/water ternary microemulsions monitored by solvent and rotational relaxation of coumarin 153 and coumarin 490

The interaction of water with room temperature ionic liquid (RTIL) [bmim][PF6] has been studied in [bmim][PF6]/TX-100/water ternary microemulsions by solvent and rotational relaxation of coumarin 153 (C-153) and coumarin 490 (C-490). The rotational relaxation and average solvation time of C-153 and C-490 gradually decrease with increase in water content of the microemulsions. The gradual increase in the size of the microemulsion with increase in w0 (w0=[water]/[surfactant]) is evident from dynamic light scattering measurements. Consequently the mobility of the water molecules also increases. In comparison to pure water the retardation of solvation time in the RTIL containing ternary microemulsions is very less. The authors have also reported the solvation time of C-490 in neat [bmim][PF6]. The solvation time of C-490 in neat [bmim][PF6] is bimodal with time constants of 400 ps and 1.10 ns.     

Solvent and rotational relaxation of coumarin 153 in a protic ionic liquid dimethylethanolammonium formate

The solvent relaxation and orientational dynamics of coumarin 153 (C-153) was investigated in N,N-dimethylethanolammonium formate (DAF) with a variation of temperature. DAF is a protic room-temperature ionic liquid, comprised of nonaromatic cations. Both solvent relaxation and orientational dynamics of C-153 in DAF are linearly well-correlated with the bulk viscosity at different temperatures. We optimized the geometry of DAF using quantum chemical calculations using density functional theory methods. The optimized structure of DAF shows a nonbonded interaction between cation and anion, which suggests that a hydrogen bond is formed between hydrogen atoms attached to the nitrogen atom of the cation with the oxygen atom of the anion in DAF.     

Ultrafast Photoinduced Electron Transfer between an Incarcerated Donor and a Free Acceptor in Aqueous Solution

Supramolecular photoinduced electron transfer dynamics between coumarin 153 (C153) and 4,4'-dimethyl viologen dichloride (MV(2+)) across the molecular barrier of a host molecule, octa acid (OA), has been investigated with femtosecond time resolution. The ultrafast electron transfer from C153 to MV(2+) followed excitation with 150 fs laser pulses at a wavelength of 390 nm despite the fact that C153 was incarcerated within an OA(2) capsule. As a result, the photoexcited coumarin did not show any of the typical relaxation dynamics that is usually observed in free solution. Instead, the excited electron was transferred across the molecular wall of the capsuleplex within 20 ps. Likewise, the lifetime of the charge transfer state was short (724 ps), and electron back-transfer reestablished the ground state of the system within 1 ns, showing strong electronic coupling among the excited electron donor, host, and acceptor. When the donor was encapsulated into the host molecule, the electron transfer process showed significantly accelerated dynamics and essentially no solvent relaxation compared with that in free solution. The study was also extended to N-methylpyridinium iodide as the acceptor with similar results.     

Probing Deuterium Isotope Effect on Structure and Solvation Dynamics of Human Serum Albumin

The deuterium isotopic effect on the structure and solvation dynamics of the protein, human serum albumin (HSA), has been studied by using circular dichroism (CD), femtosecond up‐conversion, FRET, and single‐molecule spectroscopy. The CD spectra suggest that D₂O affects the structure of HSA, leading to a 20 % decrease in the helical structure. The FRET study indicates that the distance of C153 from the lone tryptophan residue of HSA is quite similar (≈21 Å) in H₂O and D₂O, and hence, the location of the probe in the protein remains the same in the two solvents. The single‐molecule study suggests that coumarin 153 (C153) binds almost exclusively (>96 %) to one site of HSA. Solvation dynamics of C153 in HSA is found to be markedly retarded in D₂O compared with H₂O. In H₂O, the solvation of C153 bound to HSA is found to be biexponential with one component of 7 ps (30 %) and a long component of 350 ps (70 %). In D₂O, we detected a short component of 4 ps (41 %) and a long component of 950 ps (59 %). Thus, the ultraslow component of the solvation dynamics of C153 bound to HSA in D₂O (950 ps) is 2.5‐fold slower than that in H₂O (350 ps). The marked deuterium isotope effect has been ascribed to water molecules confined in the protein environment and to a lesser extent to the structural modification of protein by D₂O.     

A Hemin-Analogous Corrphycene Derivative: Suppression of Heme Oxygenase and Reconstitution with Apomyoglobin

Summary. A closely hemin-analogous corrphycene derivative was prepared in good overall yield. By spectroscopic measurements it was shown that it complexes with the stress protein heme oxygenase and apomyoglobin in a similar way as hemin. However, due to its molecular structure it is not attacked by heme oxygenase, but is able to block this enzyme to some degree. In addition, the complex with apomyoglobin displays oxygen and carbon monoxide ligation comparable to myoglobin. These properties make this novel corrphycene derivative a candidate to be used as heme oxygenase blocker or otherwise as a blood pigment substitute.Received July 15, 2003; accepted September 5, 2003 Published online October 23, 2003     

Structure-Function Analysis of the Emulsifying and Interfacial Properties of Apomyoglobin and Derived Peptides

Apomyoglobin was chosen as a model to study the emulsifying properties of proteins. It was cleaved into three peptides using cyanogen bromide and these peptides were purified and tested for emulsifying and interfacial properties. Two of the peptides had improved emulsifying activity compared to the whole protein. The peptide (residues 1-55) with the highest emulsifying activity and whole apomyoglobin were studied further. The amount of protein or peptide adsorbed at the oil-water interface of an emulsion was measured and the surface area occupied per molecule was calculated. For apomyoglobin, at maximal surface coverage each molecule occupied a surface area of approximately 8 nm2. This is consistent with a packed monolayer, based on the approximate dimensions of apomyoglobin. For peptide (1-55), at maximal surface coverage each molecule occupied a surface area of approximately 3 nm2. This is consistent with the area that the two amphipathic alpha-helices which are potentially present in this molecule would cover, if they were aligned along the oil-water interface. The different structural characteristics of these molecules responsible for their emulsifying properties are discussed. Copyright 1999 Academic Press.     

Binding of Organic Dyes with Human Serum Albumin: A Single‐Molecule Study

Kinetics of binding of dyes at different sites of human serum albumin (HSA) has been studied by single‐molecule spectroscopy. The protein was immobilized on a glass surface. To probe different binding sites (hydrophobic and hydrophilic) two dyes, coumarin 153 ( C153 , neutral) and rhodamine 6G ( R6G , cationic) were chosen. For both the dyes, a major (ca. 96‐98 %) and minor (ca. 3 %) binding site were detected. Rate constants of association and dissociation were simultaneously determined from directly measuring fluctuations in fluorescence intensity (τ_off and τ_on) and from this the equilibrium (binding) constants were calculated. Fluorescence lifetimes at individual sites were obtained from burst‐integrated lifetime analysis. Distributions of lifetime histograms for both the probes ( C153 and R6G ) exhibit two maxima, which indicates the presence of two binding domains in the protein. Unfolding of the protein has been studied by adding guanidinium hydrochloride (GdnHCl) to the solution. It is observed that addition of GdnHCl affects the dissociation and association kinetics and hence, binding equilibrium of the association of C153 . However, the effect of binding of R6G is not affected much. It is proposed that GdnHCl affects the hydrophobic binding sites more than the hydrophilic site.     

Interaction of ionic liquid with water in ternary microemulsions (Triton X-100/water/1-butyl-3-methylimidazolium hexafluorophosphate) probed by solvent and rotational relaxation of coumarin 153 and coumarin 151

The interaction of ionic liquid with water in 1-butyl-3-methylimidazolium hexafluorophosphate ([bmim][PF6])/Triton X-100 (TX-100)/H2O ternary microemulsions, i.e., "[bmim][PF6]-in-water" microregions of the microemulsions, has been studied by the dynamics of solvent and rotational relaxation of coumarin 153 (C-153) and coumarin 151 (C-151). The variation of the time constants of solvent relaxation of C-153 is very small with an increase in the [bmim][PF6]/TX-100 ratio (R). The rotational relaxation time of C-153 also remains unchanged in all micremulsions of different R values. The invariance of solvation and rotational relaxation times of C-153 indicates that the position of C-153 remains unaltered with an increase in R and probably the probe is located at the interfacial region of [bmim][PF6] and TX-100 in the microemulsions. On the other hand, in the case of C-151, with an increase in R the fast component of the solvation time gradually increases and the slow component gradually decreases, although the change in solvation time is small in comparison to that of microemulsions containing common polar solvents such as water, methanol, acetonitrile, etc. The rotational relaxation time of C-151 increases with an increase in R. This indicates that with an increase in the [bmim][PF6] content the number of C-151 molecules in the core of the microemulsions gradually increases. In general, the solvent relaxation time is retarded in this room temperature ionic liquid/water-containing microemulsion compared to that of a neat solvent, although retardation is very small compared to that of the solvent relaxation time of the conventional solvent in the core of the microemulsions.     

Structural analysis of naphthoquinone protein adducts with liquid chromatography/tandem mass spectrometry and the scoring algorithm for spectral analysis (SALSA)

The relative reactivities of various naphthoquinone isomers (1,4-, 1,2- and 2-methyl-1,4-naphthoquinone) to two test proteins, apomyoglobin and human hemoglobin, were evaluated via liquid chromatography/electrospray ionization mass spectrometry (LC/ESI-MS). The structural characterization of the resulting adducts was also obtained by LC/ESI-MS analysis of the intact proteins. The reactive sites of apomyoglobin and human hemoglobin with 1,4-naphthoquinone and 1,2-naphthoquinone were also identified through characterization of adducted tryptic peptides by use of high-pressure liquid chromatography/electrospray ionization with tandem mass spectrometry (HPLC/ESI-MS/MS), TurboSEQUEST, and the scoring algorithm for spectral analysis (SALSA). Four adducted peptides, which were formed by nucleophilic addition of a lysine amino acid residue to 1,4-naphthoquinone, were also identified, as was an adducted peptide from incubation of 1,2-naphthoquinone with apomyoglobin. In the case of incubation of human hemoglobin with the two naphthoquinones, two adducted peptides were identified from the N-terminal valine modification of the alpha and beta chains of human hemoglobin. The adducted protein formation may imply that naphthalene produces its in vivo toxicity through 1,2- and 1,4-naphthoquinone metabolites reacting with biomolecular proteins.     

Study of energy transfer from 7-amino coumarin donors to the rhodamine 6G acceptor in lecithin vesicles and sodium taurocholate-lecithin mixed aggregates

The energy transfer using 7-amino coumarin dyes as the donor and rhodamine 590 (Rh6G) as the acceptor was investigated in lecithin vesicles and sodium taurocholate (NaTC)-lecithin mixed aggregates using steady-state and time-resolved fluorescence spectroscopy. All energy transfer parameters were calculated. The coumarin 153-Rh6G pair is the most efficient donor-acceptor pair as reflected by the value of k(ET). With addition of NaTC in lecithin, in the case of the coumarin 153-Rh6G pair, the energy transfer rate or efficiency does not change very much, whereas in the case of the coumarin 151-Rh6G pair, the energy transfer rate decreases 2-fold upon going from lecithin vesicles to NaTC-lecithin mixed aggregates where the molar ratio is 2.5. It is mainly due to the deeper location of coumarin 153 in the lipid bilayer or in mixed aggregates. Rotational relaxation data also support this idea.     

Quantitative determination of the single-molecule detection regime in fluorescence fluctuation microscopy by means of photon counting histogram analysis

Fluorescence fluctuation experiments are performed in single-molecule detection regime if the fluorescence of at most one molecule is registered at a time. Although the significance of such experiments for investigations of complex nonergodic systems like those met in the biosciences has been stressed out by many scientists, the quantitative and accurate determination of the single-molecule detection regime received rather little attention. In this work we present a method based on the photon counting histogram (PCH) analysis, which enables the determination of the average number N of molecules within the observation volume, for which only the fluorescence of individual molecules is detected at a time. Thus, the accurate design of fluorescence fluctuation experiments performed in single-molecule detection regime is possible. Demonstrative fluorescence fluctuation experiments based on two-photon excitation are performed on diluted solutions of coumarin 153, in order to verify the potential of the PCH analysis in experiments on the single-molecule detection level. If the mean number N of molecules within the excitation volume is larger than 0.048, the probability to simultaneously detect the fluorescence of two or more molecules is no longer negligible, i.e., no single-molecule detection regime. If the mean number N of molecules is lower than 0.0057, the detection limit of the method is reached, i.e., the fluorescence signal cannot be distinguished from the background. Consequently, the concentration of coumarin 153 characteristic for the single-molecule detection regime lies in the range 13-110 pmol/l for the given experimental conditions. We also investigate the influence of the molecular brightness, i.e., detected photons per fluorophore molecule and sampling time, on the single-molecule detection regime.     

Pulse radiolysis studies on the formation of singlet excited states of coumarin 153 in cyclohexane solutions

By using the technique of nanosecond pulse radiolysis, pulsed electron beam induced light emission from coumarin dyes in hydrocarbon solvents has been studied. The emission spectra so obtained were similar to the optically excited fluorescence spectra. The emission lifetimes were of the same order as the fluorescence lifetimes in the respective solvents, showing that the emitting species are the same in both the cases viz. singlet excited states of the dyes. In one system viz. C 153 in cyclohexane experiments were carried out in presence of electron and hole scavengers and also the concentration dependence of emission intensity studied over a wide range. From these it is concluded that the solute excited states are formed mainly by energy transfer from the solvent excited states, part of which may arise from excitation by cerenkov light generated in the medium.