2D IR Vibrational Echo Spectroscopy Research Articles

Direct observation of dynamic crossover in fragile molecular glass formers with 2D IR vibrational echo spectroscopy.

The dynamics of supercooled liquids of the molecular glass formers benzophenone and ortho-terphenyl were investigated with 2D IR spectroscopy using long-lived vibrational probes. The long lifetimes of the probes enabled structural dynamics of the liquids to be studied from a few hundred femtoseconds to a nanosecond. 2D IR experiments measured spectraldiffusion of a vibrational probe, which reports on structural fluctuations of the liquid. Analysis of the 2D IR data provides the frequency-frequency correlation function (FFCF). Two vibrational probes were examined with equivalent results, demonstrating the observed liquid dynamics are not significantly influenced by the probe molecules. At higher temperatures, the FFCF is a biexponential decay. However, at mild supercooling, the biexponential decay is no longer sufficient, indicating a dynamic crossover. The crossover occurs at a temperature well above the mode-coupling theory critical temperature for the given liquid, indicating dynamic heterogeneity above the critical temperature. Examination of the low temperature data with lifetime density analysis shows that the change is best described as an additional, distinct relaxation that shows behavior consistent with a slow β-process.

New divergent dynamics in the isotropic to nematic phase transition of liquid crystals measured with 2D IR vibrational echo spectroscopy.

The isotropic phase of nematogenic liquid crystals has nanometer length scale domains with pseudonematic ordering. As the isotropic to nematic phase transition temperature (TNI) is approached from above, the orientational correlation length, ξ, of the pseudonematic domains grows as (T - T(*))(-1/2), where T(*) is 0.5-1 K below TNI. The orientational relaxation, which is a collective property of the pseudonematic domains, was measured with optical heterodyne detected-optical Kerr effect (OHD-OKE). The orientational relaxation obeys Landau-de Gennes theory, as has been shown previously. To examine the environmental evolution experienced by molecules in the pseudonematic domains, two-dimensional infrared (2D IR) vibrational echo experiments on the CN stretching mode of the non-perturbative vibrational probes 4-pentyl-4(')-selenocyanobiphenyl (5SeCB) and 4-pentyl-4(')-thiocyanobiphenyl (5SCB) in the nematogen 4-cyano-4(')-pentylbiphenyl (5CB) were performed. The 2D IR experiments measure spectral diffusion, which is caused by structural fluctuations that couple to the CN vibrational frequency. Temperature dependent studies were performed just above TNI, where the correlation length of pseudonematic domains is large and changing rapidly with temperature. These studies were compared to 2D IR experiments on 4-pentylbiphenyl (5B), a non-mesogenic liquid that is very similar in structure to 5CB. The time constants of spectral diffusion in 5CB and 5B are practically identical at temperatures ≥5 K above TNI. As the temperature is lowered, spectral diffusion in 5B slows gradually. However, the time constants for spectral diffusion in 5CB slow dramatically and diverge as T(*) is approached. This divergence has temperature dependence proportional to (T - T(*))(-1/2), precisely the same as seen for the correlation length of pseudonematic domains, but different from the observed orientational relaxation times, which are given by the Landau-de Gennes theory. The data and previous results show that spectral diffusion in 5CB has no contributions from orientational relaxation, and the structural dynamics responsible for the spectral diffusion are likely a result of density fluctuations. The results suggest that the correlation length of the density fluctuations is diverging with the same temperature dependence as the pseudonematic domain correlation length, ξ. The isotropic-nematic phase transition in liquid crystals is described in the context of the slowing of orientational relaxation associated with divergent growth of the orientational correlation length. The results presented here show that there is another divergent dynamical process, likely associated with density fluctuations.

The Influence of Cholesterol on Fast Dynamics Inside of Vesicle and Planar Phospholipid Bilayers Measured with 2D IR Spectroscopy.

Phospholipid bilayers are frequently used as models for cell membranes. Here the influence of cholesterol on the structural dynamics in the interior of 1,2-dilauroyl-sn-glycero-3-phosphocholine (dilauroylphosphatidylcholine, DLPC) vesicles and DLPC planar bilayers are investigated as a function of cholesterol concentration. 2D IR vibrational echo spectroscopy was performed on the antisymmetric CO stretch of the vibrational probe molecule tungsten hexacarbonyl, which is located in the interior alkyl regions of the bilayers. The 2D IR experiments measure spectral diffusion, which is caused by the structural fluctuations of the bilayers. The 2D IR measurements show that the bilayer interior alkyl region dynamics occur on time scales ranging from a few picoseconds to many tens of picoseconds. These are the time scales of the bilayers' structural dynamics, which act as the dynamic solvent bath for chemical processes of membrane biomolecules. The results suggest that at least a significant fraction of the dynamics arise from density fluctuations. Samples are studied in which the cholesterol concentration is varied from 0% to 40% in both the vesicles (72 nm diameter) and fully hydrated planar bilayers in the form of aligned multibilayers. At all cholesterol concentrations, the structural dynamics are faster in the curved vesicle bilayers than in the planar bilayers. As the cholesterol concentration is increased, at a certain concentration there is a sudden change in the dynamics, that is, the dynamics abruptly slow down. However, this change occurs at a lower concentration in the vesicles (between 10% and 15% cholesterol) than in the planar bilayers (between 25% and 30% cholesterol). The sudden change in the dynamics, in addition to other IR observables, indicates a structural transition. However, the results show that the cholesterol concentration at which the transition occurs is influenced by the curvature of the bilayers.

Dynamics of Molecular Monolayers with Different Chain Lengths in Air and Solvents Probed by Ultrafast 2D IR Spectroscopy

The ultrafast dynamics of functionalized alkylsilane monolayers with two different alkyl chain lengths, C11 and C3, are studied by 2D IR vibrational echo spectroscopy. Terminal sites of the monolayers are functionalized with an IR probe, tricarbonyl (1,10-phenanthroline) rhenium chloride (RePhen(CO)3Cl), to report on the structural dynamics of monolayer-air and monolayer-solvent interfaces. Frequency–frequency correlation functions (FFCF) of symmetric CO stretching mode were extracted from 2D IR spectra. The FFCF provides information on the time evolution of surface structures that contribute to the inhomogeneously broadened IR absorption spectrum of the CO stretch by quantifying spectral diffusion. To elucidate the detailed structural dynamics with accurate time constants, FFCF decays were monitored to 60 ps, a major improvement over prior experiments. Without the presence of solvents, C3 monolayers have significantly slower spectral diffusion (66 ps) than C11 monolayer (38 ps). This difference supports the previous postulate that spectral diffusion associated with the molecular monolayer in air involves the structural dynamics of the tethering alkyl chains. With the C11 and C3 monolayers immersed in dimethylformamide (DMF), in which RePhen(CO)3Cl is soluble, the FFCFs of both samples display biexponential decays with the time constants of 5.6 and 43 ps for C11 and 5.9 and 63 ps for C3. The slower time constants are in good agreement with the spectral diffusion time constants observed in the absence of solvent, indicating that these slower components still reflect the monolayers’ dynamics, which are not affected by the presence of the solvent. Because the faster time constants were independent of chain length and similar to that of the RePhen(CO)3Cl headgroup in bulk DMF solution, they are attributed to the dynamics of the interfacial DMF molecules. When monolayers were immersed in hexadecane, in which RePhen(CO)3Cl is not soluble, slower dynamics were again observed for the C3 monolayer than the C11 monolayer. The orientational dynamics of the IR probes were studied using polarization selective heterodyne detected transient grating experiments as well.

Ultrafast Structural Dynamics Inside Planar Phospholipid Multibilayer Model Cell Membranes Measured with 2D IR Spectroscopy

The ultrafast dynamics in the interior of planar aligned multibilayers of 1,2-dilauroyl-sn-glycero-3-phosphocholine (dilauroylphosphatidylcholine, DLPC) are investigated using 2D IR vibrational echo spectroscopy. The nonpolar and water insoluble vibrational dynamics probe, tungsten hexacarbonyl (W(CO)6), is located in the alkane interior of the membranes. The 2D IR experiments conducted on the antisymmetric CO stretching mode measure spectral diffusion caused by the structural dynamics of the membrane from ~200 fs to ~200 ps as a function of the number of water molecules hydrating the head groups and as a function of cholesterol content for a fixed hydration level. FT-IR studies of the lipid bilayers and the model liquids, hexadecane and bis(2-ethylhexyl) succinate, indicate that as the number of hydrating water molecules increases from 2 to 16, there are structural changes in the membrane that partition some of the W(CO)6 into the ester region of DLPC. However, the 2D IR measurements, which are made solely on the W(CO)6 in the alkane regions, show that the level of hydration has no observable impact on the interior membrane dynamics. FT-IR spectra and 2D IR experiments on samples with cholesterol concentrations from 0 to 60% demonstrate that there is a change in the membrane structure and an abrupt change in dynamics at 35% cholesterol. The dynamics are independent of cholesterol content from 10 to 35%. At 35%, the dynamics become slower and remain unchanged from 35 to 60% cholesterol.

Water Dynamics in Divalent and Monovalent Concentrated Salt Solutions

Water hydrogen bond dynamics in concentrated salt solutions are studied using polarization-selective IR pump-probe spectroscopy and 2D IR vibrational echo spectroscopy performed on the OD hydroxyl stretching mode of dilute HOD in H(2)O/salt solutions. The OD stretch is studied to eliminate vibrational excitation transfer, which interferes with the dynamical measurements. Though previous research suggested that only the anion affected dynamics in solution, here it is shown that the cation plays a role as well. From FT-IR spectra of the OD stretch, it is seen that replacing either ion of the salt pair causes a shift in absorption frequency relative to that of the OD stretch absorption in bulk pure water. This shift becomes pronounced with larger, more polarizable anions or smaller, high charge-density cations. The vibrational lifetime of the OD hydroxyl stretch in these solutions is a local property and is primarily dependent on the nature of the anion and whether the OD is hydrogen bonded to the anion or to the oxygen of another water molecule. However, the cation still has a small effect. Time dependent anisotropy measurements show that reorientation dynamics in these concentrated solutions is a highly concerted process. While the lifetime, a local probe, displays an ion-associated and a bulk-like component in concentrated solutions, the orientational relaxation does not have two subensemble dynamics, as demonstrated by the lack of a wavelength dependence. The orientational relaxation of the single ensemble is dependent on the identity of both the cation and anion. The 2D IR vibrational echo experiments measure spectral diffusion that is caused by structural evolution of the system. The vibrational echo measurements yield the frequency-frequency correlation function (FFCF). The results also show that the structural dynamics are dependent on the cation as well as the anion.

Ribonuclease S dynamics measured using a nitrile label with 2D IR vibrational echo spectroscopy.

A nitrile-labeled amino acid, p-cyanophenylalanine, is introduced near the active site of the semisynthetic enzyme ribonuclease S to serve as a probe of protein dynamics and fluctuations. Ribonuclease S is the limited proteolysis product of subtilisin acting on ribonuclease A, and consists of a small fragment including amino acids 1-20, the S-peptide, and a larger fragment including residues 21-124, the S-protein. A series of two-dimensional vibrational echo experiments performed on the nitrile-labeled S-peptide and the RNase S are described. The time-dependent changes in the two-dimensional infrared vibrational echo line shapes are analyzed using the center line slope method to obtain the frequency-frequency correlation function (FFCF). The observations show that the nitrile probe in the S-peptide has dynamics that are similar to, but faster than, those of the single amino acid p-cyanophenylalanine in water. In contrast, the dynamics of the nitrile label when the peptide is bound to form ribonuclease S are dominated by homogeneous dephasing (motionally narrowed) contributions with only a small contribution from very fast inhomogeneous structural dynamics. The results provide insights into the nature of the structural dynamics of the ribonuclease S complex. The equilibrium dynamics of the nitrile labeled S-peptide and the ribonuclease S complex are also investigated by molecular dynamics simulations. The experimentally determined FFCFs are compared to the FFCFs obtained from the molecular dynamics simulations, thereby testing the capacity of simulations to determine the amplitudes and time scales of protein structural fluctuations on fast time scales under thermal equilibrium conditions.

Dynamics of Interfaces Studied with Ultrafast 2D IR Vibrational Echo Spectroscopy

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Dynamics at Specific Sites in Proteins Studied by 2D IR Vibrational Echo Spectroscopy

The techniques of two-dimensional infrared (2D IR) spectroscopy enable the study of fluctuations of molecules and their environments on fast timescales. Characterization of specific sites in proteins requires the use of extrinsic vibration probes to alleviate the spectral complexity that hinders the application of IR spectroscopy with protein samples. Heme-bound CO has been a popular vibrational probe of protein active sites and, for example, was employed to characterize the involvement of dynamics in the specificity of cytochrome P450 using 2D IR spectroscopy. In efforts toward extending the 2D IR studies beyond heme proteins, an azidophenylalanine vibrational probe was introduced at a specific site within myoglobin using orthogonal transfer RNA (tRNA)/aminoacyl-tRNA synthetase pairs evolved to insert azidophenylalanine in response to an amber codon. The azidophenylalanine vibrational probe was placed within the heme pocket at Phe43, permitting investigation of one site in myoglobin via two different vibrational probes - the genetically introduced azidophenylalanine and heme bound CO. The use of two probes allowed assessment of the perturbation due to introduction of each and the measurement of the heme pocket dynamics via two perspectives, showing that the reported dynamics were reflective of the protein motions, and not intrinsic to a particular probe. This approach can be used in the future to characterize the dynamics at virtually any site throughout virtually any protein.

Protein dynamics in cytochrome P450 molecular recognition and substrate specificity using 2D IR vibrational echo spectroscopy.

Cytochrome (cyt) P450s hydroxylate a variety of substrates that can differ widely in their chemical structure. The importance of these enzymes in drug metabolism and other biological processes has motivated the study of the factors that enable their activity on diverse classes of molecules. Protein dynamics have been implicated in cyt P450 substrate specificity. Here, 2D IR vibrational echo spectroscopy is employed to measure the dynamics of cyt P450(cam) from Pseudomonas putida on fast time scales using CO bound at the active site as a vibrational probe. The substrate-free enzyme and the enzyme bound to both its natural substrate, camphor, and a series of related substrates are investigated to explicate the role of dynamics in molecular recognition in cyt P450(cam) and to delineate how the motions may contribute to hydroxylation specificity. In substrate-free cyt P450(cam), three conformational states are populated, and the structural fluctuations within a conformational state are relatively slow. Substrate binding selectively stabilizes one conformational state, and the dynamics become faster. Correlations in the observed dynamics with the specificity of hydroxylation of the substrates, the binding affinity, and the substrates' molecular volume suggest that motions on the hundreds of picosecond time scale contribute to the variation in activity of cyt P450(cam) toward different substrates.

Dynamics of the folded and unfolded villin headpiece (HP35) measured with ultrafast 2D IR vibrational echo spectroscopy

A series of two-dimensional infrared vibrational echo experiments performed on nitrile-labeled villin headpiece [HP35-(CN)(2)] is described. HP35 is a small peptide composed of three alpha helices in the folded configuration. The dynamics of the folded HP35-(CN)(2) are compared to that of the guanidine-induced unfolded peptide, as well as the nitrile-functionalized phenylalanine (PheCN), which is used to differentiate the peptide dynamic contributions to the observables from those of the water solvent. Because the viscosity of solvent has a significant effect on fast dynamics, the viscosity of the solvent is held constant by adding glycerol. For the folded peptide, the addition of glycerol to the water solvent causes observable slowing of the peptide's dynamics. Holding the viscosity constant as GuHCl is added, the dynamics of unfolded peptide are much faster than those of the folded peptide, and they are very similar to that of PheCN. These observations indicate that the local environment of the nitrile in the unfolded peptide resembles that of PheCN, and the dynamics probed by the CN are dominated by the fluctuations of the solvent molecules, in contrast to the observations on the folded peptide.

Water dynamics in small reverse micelles in two solvents: Two-dimensional infrared vibrational echoes with two-dimensional background subtraction

Water dynamics as reflected by the spectral diffusion of the water hydroxyl stretch were measured in w(0) = 2 (1.7 nm diameter) Aerosol-OT (AOT)/water reverse micelles in carbon tetrachloride and in isooctane solvents using ultrafast 2D IR vibrational echo spectroscopy. Orientational relaxation and population relaxation are observed for w(0) = 2, 4, and 7.5 in both solvents using IR pump-probe measurements. It is found that the pump-probe observables are sensitive to w(0), but not to the solvent. However, initial analysis of the vibrational echo data from the water nanopool in the reverse micelles in the isooctane solvent seems to yield different dynamics than the CCl(4) system in spite of the fact that the spectra, vibrational lifetimes, and orientational relaxation are the same in the two systems. It is found that there are beat patterns in the interferograms with isooctane as the solvent. The beats are observed from a signal generated by the AOT/isooctane system even when there is no water in the system. A beat subtraction data processing procedure does a reasonable job of removing the distortions in the isooctane data, showing that the reverse micelle dynamics are the same within experimental error regardless of whether isooctane or carbon tetrachloride is used as the organic phase. Two time scales are observed in the vibrational echo data, ~1 and ~10 ps. The slower component contains a significant amount of the total inhomogeneous broadening. Physical arguments indicate that there is a much slower component of spectral diffusion that is too slow to observe within the experimental window, which is limited by the OD stretch vibrational lifetime.

Conformational Switching between Protein Substates Studied with 2D IR Vibrational Echo Spectroscopy and Molecular Dynamics Simulations

Myoglobin is an important protein for the study of structure and dynamics. Three conformational substates have been identified for the carbonmonoxy form of myoglobin (MbCO). These are manifested as distinct peaks in the IR absorption spectrum of the CO stretching mode. Ultrafast 2D IR vibrational echo chemical exchange experiments are used to observed switching between two of these substates, A(1) and A(3), on a time scale of <100 ps for two mutants of wild-type Mb. The two mutants are a single mutation of Mb, L29I, and a double mutation, T67R/S92D. Molecular dynamics (MD) simulations are used to model the structural differences between the substates of the two MbCO mutants. The MD simulations are also employed to examine the substate switching in the two mutants as a test of the ability of MD simulations to predict protein dynamics correctly for a system in which there is a well-defined transition over a significant potential barrier between two substates. For one mutant, L29I, the simulations show that translation of the His64 backbone may differentiate the two substates. The simulations accurately reproduce the experimentally observed interconversion time for the L29I mutant. However, MD simulations exploring the same His64 backbone coordinate fail to display substate interconversion for the other mutant, T67R/S92D, thus pointing to the likely complexity of the underlying protein interactions. We anticipate that understanding conformational dynamics in MbCO via ultrafast 2D IR vibrational echo chemical exchange experiments can help to elucidate fast conformational switching processes in other proteins.

Ultrafast Interconversion between Protein Conformational Substates: Directly Observed by 2D IR Vibrational Echo Spectroscopy

Conformational dynamics of flexible biomolecules play an important role in the function and stability of proteins. Folded proteins can exist in multiple conformational substates, where each substate has a distinct structure and corresponds to a local minimum on the free energy landscape. Transitions from one minimum to another correspond to dynamical changes in the structure of the protein. By using 2D IR spectroscopy, conformational interconversion between these well defined substates of a myoglobin double mutant is observed on picoseconds timescale. The conformational dynamics are directly measured through the evolution of cross peaks in the 2D IR spectra of CO bound to the heme active site. The conformational switching changes the CO frequency, as detected by the waiting time dependence of the 2D IR vibrational echo spectrum. This result is an example where conformational switching between protein substates occurs on very fast time scales. Moreover, this myoglobin mutant shows enzymatic activity upon substrate binding, which makes it an excellent system to study the influence of substrate binding on structural dynamics.

Taking apart the two-dimensional infrared vibrational echo spectra: More information and elimination of distortions

Ultrafast two-dimensional infrared (2D-IR) vibrational echo spectroscopy can probe the fast structural evolution of molecular systems under thermal equilibrium conditions. Structural dynamics are tracked by observing the time evolution of the 2D-IR spectrum, which is caused by frequency fluctuations of vibrational mode(s) excited during the experiment. However, there are a variety of effects that can produce line shape distortions and prevent the correct determination of the frequency-frequency correlation function (FFCF), which describes the frequency fluctuations and connects the experimental observables to a molecular level depiction of dynamics. In addition, it can be useful to analyze different parts of the 2D spectrum to determine if dynamics are different for subensembles of molecules that have different initial absorption frequencies in the inhomogeneously broadened absorption line. Here, an important extension to a theoretical method for extraction of the FFCF from 2D-IR spectra is described. The experimental observable is the center line slope (CLSomega(m)) of the 2D-IR spectrum. The CLSomega(m) is obtained by taking slices through the 2D spectrum parallel to the detection frequency axis (omega(m)). Each slice is a spectrum. The slope of the line connecting the frequencies of the maxima of the sliced spectra is the CLSomega(m). The change in slope of the CLSomega(m) as a function of time is directly related to the FFCF and can be used to obtain the complete FFCF. CLSomega(m) is immune to line shape distortions caused by destructive interference between bands arising from vibrational echo emission, from the 0-1 vibrational transition (positive), and from the 1-2 vibrational transition (negative) in the 2D-IR spectrum. The immunity to the destructive interference enables the CLSomega(m) method to compare different parts of the bands as well as comparing the 0-1 and 1-2 bands. Also, line shape distortions caused by solvent background absorption and finite pulse durations do not affect the determination of the FFCF with the CLSomega(m) method. The CLSomega(m) can also provide information on the cross correlation between frequency fluctuations of the 0-1 and 1-2 vibrational transitions.

Water DynamicsThe Effects of Ions and Nanoconfinement

Hydrogen bond dynamics of water in highly concentrated NaBr salt solutions and reverse micelles are studied using ultrafast 2D-IR vibrational echo spectroscopy and polarization-selective IR pump-probe experiments performed on the OD hydroxyl stretch of dilute HOD in H(2)O. The vibrational echo experiments measure spectral diffusion, and the pump-probe experiments measure orientational relaxation. Both experimental observables are directly related to the structural dynamics of water's hydrogen bond network. The measurements performed on NaBr solutions as a function of concentration show that the hydrogen bond dynamics slow as the NaBr concentration increases. The most pronounced change is in the longest time scale dynamics which are related to the global rearrangement of the hydrogen bond structure. Complete hydrogen bond network randomization slows by a factor of approximately 3 in approximately 6 M NaBr solution compared to that in bulk water. The hydrogen bond dynamics of water in nanoscopically confined environments are studied by encapsulating water molecules in ionic head group (AOT) and nonionic head group (Igepal CO 520) reverse micelles. Water dynamics in the nanopools of AOT reverse micelles are studied as a function of size by observing orientational relaxation. Orientational relaxation dynamics deviate significantly from bulk water when the size of the reverse micelles is smaller than several nm and become nonexponential and slower as the size of the reverse micelles decreases. In the smallest reverse micelles, orientational relaxation (hydrogen bond structural randomization) is almost 20 times slower than that in bulk water. To determine if the changes in dynamics from bulk water are caused by the influence of the ionic head groups of AOT or the nanoconfinement, the water dynamics in 4 nm nanopools in AOT reverse micelles (ionic) and Igepal reverse micelles (nonionic) are compared. It is found that the water orientational relaxation in the 4 nm diameter nanopools of the two types of reverse micelles is almost identical, which indicates that confinement by an interface to form a nanoscopic water pool is a primary factor governing the dynamics of nanoscopic water rather than the presence of charged groups at the interface.

Disulfide bond influence on protein structural dynamics probed with 2D-IR vibrational echo spectroscopy.

Intramolecular disulfide bonds are understood to play a role in regulating protein stability and activity. Because disulfide bonds covalently link different components of a protein, they influence protein structure. However, the effects of disulfide bonds on fast (subpicosecond to approximately 100 ps) protein equilibrium structural fluctuations have not been characterized experimentally. Here, ultrafast 2D-IR vibrational echo spectroscopy is used to examine the constraints an intramolecular disulfide bond places on the structural fluctuations of the protein neuroglobin (Ngb). Ngb is a globin family protein found in vertebrate brains that binds oxygen reversibly. Like myoglobin (Mb), Ngb has the classical globin fold and key residues around the heme are conserved. Furthermore, the heme-ligated CO vibrational spectra of Mb (Mb-CO) and Ngb (Ngb-CO) are virtually identical. However, in contrast to Mb, human Ngb has an intramolecular disulfide bond that affects its oxygen affinity and protein stability. By using 2D-IR vibrational echo spectroscopy, we investigated the equilibrium protein dynamics of Ngb-CO by observing the CO spectral diffusion (time dependence of the 2D-IR line shapes) with and without the disulfide bond. Despite the similarity of the linear FTIR spectra of Ngb-CO with and without the disulfide bond, 2D-IR measurements reveal that the equilibrium sampling of different protein configurations is accelerated by disruption of the disulfide bond. The observations indicate that the intramolecular disulfide bond in Ngb acts as an inhibitor of fast protein dynamics even though eliminating it does not produce significant conformational change in the protein's structure.

Hydrogen bond dynamics in aqueous NaBr solutions.

Hydrogen bond dynamics of water in NaBr solutions are studied by using ultrafast 2D IR vibrational echo spectroscopy and polarization-selective IR pump-probe experiments. The hydrogen bond structural dynamics are observed by measuring spectral diffusion of the OD stretching mode of dilute HOD in H(2)O in a series of high concentration aqueous NaBr solutions with 2D IR vibrational echo spectroscopy. The time evolution of the 2D IR spectra yields frequency-frequency correlation functions, which permit quantitative comparisons of the influence of NaBr concentration on the hydrogen bond dynamics. The results show that the global rearrangement of the hydrogen bond structure, which is represented by the slowest component of the spectral diffusion, slows, and its time constant increases from 1.7 to 4.8 ps as the NaBr concentration increases from pure water to approximately 6 M NaBr. Orientational relaxation is analyzed with a wobbling-in-a-cone model describing restricted orientational diffusion that is followed by complete orientational randomization described as jump reorientation. The slowest component of the orientational relaxation increases from 2.6 ps (pure water) to 6.7 ps (approximately equal to 6 M NaBr). Vibrational population relaxation of the OD stretch also slows significantly as the NaBr concentration increases.

Frequency-frequency correlation functions and apodization in two-dimensional infrared vibrational echo spectroscopy: A new approach

Ultrafast two-dimensional infrared (2D-IR) vibrational echo spectroscopy can probe structural dynamics under thermal equilibrium conditions on time scales ranging from femtoseconds to approximately 100 ps and longer. One of the important uses of 2D-IR spectroscopy is to monitor the dynamical evolution of a molecular system by reporting the time dependent frequency fluctuations of an ensemble of vibrational probes. The vibrational frequency-frequency correlation function (FFCF) is the connection between the experimental observables and the microscopic molecular dynamics and is thus the central object of interest in studying dynamics with 2D-IR vibrational echo spectroscopy. A new observable is presented that greatly simplifies the extraction of the FFCF from experimental data. The observable is the inverse of the center line slope (CLS) of the 2D spectrum. The CLS is the inverse of the slope of the line that connects the maxima of the peaks of a series of cuts through the 2D spectrum that are parallel to the frequency axis associated with the first electric field-matter interaction. The CLS varies from a maximum of 1 to 0 as spectral diffusion proceeds. It is shown analytically to second order in time that the CLS is the T(w) (time between pulses 2 and 3) dependent part of the FFCF. The procedure to extract the FFCF from the CLS is described, and it is shown that the T(w) independent homogeneous contribution to the FFCF can also be recovered to yield the full FFCF. The method is demonstrated by extracting FFCFs from families of calculated 2D-IR spectra and the linear absorption spectra produced from known FFCFs. Sources and magnitudes of errors in the procedure are quantified, and it is shown that in most circumstances, they are negligible. It is also demonstrated that the CLS is essentially unaffected by Fourier filtering methods (apodization), which can significantly increase the efficiency of data acquisition and spectral resolution, when the apodization is applied along the axis used for obtaining the CLS and is symmetrical about tau=0. The CLS is also unchanged by finite pulse durations that broaden 2D spectra.

Hydrogen bond lifetimes and energetics for solute/solvent complexes studied with 2D-IR vibrational echo spectroscopy.

Weak pi hydrogen-bonded solute/solvent complexes are studied with ultrafast two-dimensional infrared (2D-IR) vibrational echo chemical exchange spectroscopy, temperature-dependent IR absorption spectroscopy, and density functional theory calculations. Eight solute/solvent complexes composed of a number of phenol derivatives and various benzene derivatives are investigated. The complexes are formed between the phenol derivative (solute) in a mixed solvent of the benzene derivative and CCl4. The time dependence of the 2D-IR vibrational echo spectra of the phenol hydroxyl stretch is used to directly determine the dissociation and formation rates of the hydrogen-bonded complexes. The dissociation rates of the weak hydrogen bonds are found to be strongly correlated with their formation enthalpies. The correlation can be described with an equation similar to the Arrhenius equation. The results are discussed in terms of transition state theory.