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.     

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.     

Dynamics of a myoglobin mutant enzyme: 2D IR vibrational echo experiments and simulations

Myoglobin (Mb) double mutant T67R/S92D displays peroxidase enzymatic activity in contrast to the wild type protein. The CO adduct of T67R/S92D shows two CO absorption bands corresponding to the A(1) and A(3) substates. The equilibrium protein dynamics for the two distinct substates of the Mb double mutant are investigated by using two-dimensional infrared (2D IR) vibrational echo spectroscopy and molecular dynamics (MD) simulations. The time-dependent changes in the 2D IR vibrational echo line shapes for both of the substates are analyzed using the center line slope (CLS) method to obtain the frequency-frequency correlation function (FFCF). The results for the double mutant are compared to those from the wild type Mb. The experimentally determined FFCF is compared to the FFCF obtained from molecular dynamics simulations, thereby testing the capacity of a force field to determine the amplitudes and time scales of protein structural fluctuations on fast time scales. The results provide insights into the nature of the energy landscape around the free energy minimum of the folded protein structure.     

Water at the surfaces of aligned phospholipid multibilayer model membranes probed with ultrafast vibrational spectroscopy

The dynamics of water at the surface of artificial membranes composed of aligned multibilayers of the phospholipid dilauroyl phosphatidylcholine (DLPC) are probed with ultrafast polarization selective vibrational pump-probe spectroscopy. The experiments are performed at various hydration levels, x = 2 - 16 water molecules per lipid at 37 degrees C. The water molecules are approximately 1 nm above or below the membrane surface. The experiments are conducted on the OD stretching mode of dilute HOD in H 2O to eliminate vibrational excitation transfer. The FT-IR absorption spectra of the OD stretch in the DLPC bilayer system at low hydration levels shows a red-shift in frequency relative to bulk water, which is in contrast to the blue-shift often observed in systems such as water nanopools in reverse micelles. The spectra for x = 4 - 16 can be reproduced by a superposition of the spectra for x = 2 and bulk water. IR Pump-probe measurements reveal that the vibrational population decays (lifetimes) become longer as the hydration level is decreased. The population decays are fit well by biexponential functions. The population decays, measured as a function of the OD stretch frequency, suggest the existence of two major types of water molecules in the interfacial region of the lipid bilayers. One component may be a clathrate-like water cluster near the hydrophobic choline group and the other may be related to the hydration water molecules mainly associated with the phosphate group. As the hydration level increases, the vibrational lifetimes of these two components decrease, suggesting a continuous evolution of the hydration structures in the two components associated with the swelling of the bilayers. The agreement of the magnitudes of the two components obtained from IR spectra with those from vibrational lifetime measurements further supports the two-component model. The vibrational population decay fitting also gives an estimation of the number of phosphate-associated water molecules and choline-associated water molecules, which range from 1 to 4 and 1 to 12, respectively, as x increases from 2 to 16. Time-dependent anisotropy measurements yield the rate of orientational relaxation as a function of x. The anisotropy decay is biexponential. The fast component is almost independent of x, and is interpreted as small orientational fluctuations that occur without hydrogen-bond rearrangement. The slower component becomes very long as the hydration level decreases. This component is a measure of the rate of complete orientational randomization, which requires H-bond rearrangement and is discussed in terms of a jump reorientation model.     

High-resolution Absorption Spectra of Acetylene in 142.8-152.3 nm

The absorption spectra of acetylene molecules was measured under jet-cooled conditions in the wavelength range of 142.8-152.3 nm,with a tunable and highly resolved vacuum ultraviolet (VUV) laser generated by two-photon resonant four wave difference frequency mixing processes. Due to the sufficient vibrational and rotational cooling effect of the molecular beam and the higher resolution VUV laser, the observed absorption spectra exhibit more distinct spectral features than the previous works measured at room temperature. The major three vibrational bands are assigned as a CC symmetry stretching vibrational progress (v2=0-2) of the C1Ⅱu state of acetylene.The observed shoulder peak at 148.2 nm is assigned to the first overtone band of the trans-bending mode v4 of the C1Ⅱu state of acetylene. Additionally,the two components, 420 (μ1Ⅱu) and 420(к1Ⅱu),are suggested to exhibit in the present absorption spectra,due to their Renner-Teller effect and transition selection rule.All band origins and bandwidths are obtained subsequently,and it is foundthat bandwidths are broadened and lifetimes decrease gradually with the excitation of vibration.     

Vibrational spectroscopy of water in hydrated lipid multi-bilayers. I. Infrared spectra and ultrafast pump-probe observables

The vibrational spectroscopy of hydration water in dilauroylphosphatidylcholine lipid multi-bilayers is investigated using molecular dynamics simulations and a mixed quantum/classical model for the OD stretch spectroscopy of dilute HDO in H(2)O. FTIR absorption spectra, and isotropic and anisotropic pump-probe decay curves have been measured experimentally as a function of the hydration level of the lipid multi-bilayer, and our goal is to make connection with these experiments. To this end, we use third-order response functions, which allow us to include non-Gaussian frequency fluctuations, non-Condon effects, molecular rotations, and a fluctuating vibrational lifetime, all of which we believe are important for this system. We calculate the response functions using existing transition frequency and dipole maps. From the experiments it appears that there are two distinct vibrational lifetimes corresponding to HDO molecules in different molecular environments. In order to obtain these lifetimes, we consider a simple two-population model for hydration water hydrogen bonds. Assuming a different lifetime for each population, we then calculate the isotropic pump-probe decay, fitting to experiment to obtain the two lifetimes for each hydration level. With these lifetimes in hand, we then calculate FTIR spectra and pump-probe anisotropy decay as a function of hydration. This approach, therefore, permits a consistent calculation of all observables within a unified computational scheme. Our theoretical results are all in qualitative agreement with experiment. The vibrational lifetime of lipid-associated OD groups is found to be systematically shorter than that of the water-associated population, and the lifetimes of each population increase with decreasing hydration, in agreement with previous analysis. Our theoretical FTIR absorption spectra successfully reproduce the experimentally observed red-shift with decreasing lipid hydration, and we confirm a previous interpretation that this shift results from the hydrogen bonding of water to the lipid phosphate group. From the pump-probe anisotropy decay, we confirm that the reorientational motions of water molecules slow significantly as hydration decreases, with water bound in the lipid carbonyl region undergoing the slowest rotations.     

What nonlinear-IR experiments can tell you about water that the IR spectrum cannot

Frequently, the IR spectrum of water is used to characterize the structure and strength of the associated hydrogen bond network. Here, we use nonlinear-IR spectroscopy to investigate the dynamics of four aqueous systems that have very similar absorption spectra. We address the question: to what extent can the dynamics of water vary in systems with very similar absorption spectra? The results illustrate that the vibrational lifetimes and orientational relaxation time scales vary dramatically between the four samples and do not correlate with the amount of water relative to surfactant or solute in solution. Nonlinear-IR spectroscopies are therefore important for providing detailed information necessary to understand hydrogen bonded systems.     

An optical-optical double resonance experiment in LiH molecules: lifetime measurements in the C state

An optical-optical double resonance sub-Doppler experiment is used to measure short nonradiative lifetimes in the C (1)Sigma(+) state of LiH. These lifetimes are expected to result from the strong electronic interaction between the C (1)Sigma(+) state and the continuum of the A (1)Sigma(+) state and to vary with the vibrational quantum number, from nanoseconds to milliseconds. The experimental setup combines a molecular beam of LiH, a first cw laser beam locked to a given A-X absorption line, and a second cw laser beam scanned over C-A absorption profiles. Analysis of these absorption profiles in terms of Voigt profiles shows that their Lorentzian components significantly vary with the vibrational quantum numbers of the C state. Nonradiative decay rates deduced this way are systematically larger than the calculated ones but their variations are similar. Coherent saturation effects cannot be invoked to explain this discrepancy.     

Time-resolved excitation spectra of xenon vapor in the 1500 Å region

Time-integrated and time-resolved excitation spectra, as well as fluorescence lifetimes, have been measured for xenon vapor as a funtion of pressure (for pure xenon as well as with different collision partners: krypton and helium), monitoring the 1700 Å second continuum afterglow. Three very different decay components have been observed: (a) A short component with lifetimes of the order of 2 ns, which is attributed to emission from the upper vibrational levels of the O⁺_u(¹Σ⁺_u) state of Xe*₂. (b) A long component with τ ≈ 60 ns, corresponding to emission from thermally relaxed vibrational levels of the 1_u,O^?_u(³Σ⁺_u) states of Xe*₂. No intervention of any Xe atomic excited species is invoked to explain the excitation and deactivation processes of Xe₂ molecules for these two components of the fluorescence. (c) A very long component with lifetimes in the 150–500 ns range, having a broad ? 1000 cm^?1 - excitation band, centered at ≈ 1470 Å and showing a striking screening and self-absorption effect as well as a strong effect when the partial pressure of a collision partner (Kr, He) is increased. The mechanism of this last excitation is not yet very well understood.     

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.     

Tracking water's response to structural changes in Nafion membranes

As the water content of Nafion membranes increases, the local environments of water molecules change due to reorganization of the pendant side chains in the hydrophilic domains. Changes in local structure as a function of water content are studied by measuring the IR spectra and the vibrational lifetimes of the hydroxyl stretch of dilute HOD in H(2)O. The main features of the IR spectra are fit well by a weighted sum of the spectra of bulk water and almost dry Nafion, suggesting a two-environment model. An additional small peak on the high frequency side of the main band associated with non-hydrogen-bonded water embedded in the polymer near the interface is analyzed quantitatively as a function of the membrane water content. The spectra of this peak show that a significant reorganization of the interfacial region occurs when the water content of the membrane exceeds the threshold for ion conduction. Vibrational excited state population relaxation times (lifetimes) of the main band lengthen substantially as the water content of the membrane is decreased. The population decays are not single exponentials and indicate that multiple ensembles of water molecules exist, and the characteristics of the individual ensembles change with water content. This is in contrast to the spectra of the main water absorption band, which is only sensitive to two classes of water molecules.     

Dynamics of nanoscopic water: vibrational echo and infrared pump-probe studies of reverse micelles

The dynamics of water in nanoscopic pools 1.7-4.0 nm in diameter in AOT reverse micelles were studied with ultrafast infrared spectrally resolved stimulated vibrational echo and pump-probe spectroscopies. The experiments were conducted on the OD hydroxyl stretch of low-concentration HOD in the H2O, providing a direct examination of the hydrogen-bond network dynamics. Pump-probe experiments show that the vibrational lifetime of the OD stretch mode increases as the size of the reverse micelle decreases. These experiments are also sensitive to hydrogen-bond dissociation and reformation dynamics, which are observed to change with reverse micelle size. Spectrally resolved vibrational echo data were obtained at several frequencies. The vibrational echo data are compared to data taken on bulk water and on a 6 M NaCl solution, which is used to examine the role of ionic strength on the water dynamics in reverse micelles. Two types of vibrational echo measurements are presented: the vibrational echo decays and the vibrational echo peak shifts. As the water nanopool size decreases, the vibrational echo decays become slower. Even the largest nanopool (4 nm, approximately 1000 water molecules) has dynamics that are substantially slower than bulk water. It is demonstrated that the slow dynamics in the reverse micelle water nanopools are a result of confinement rather than ionic strength. The data are fit using time-dependent diagrammatic perturbation theory to obtain the frequency-frequency correlation function (FFCF) for each reverse micelle. The results are compared to the FFCF of water and show that the largest differences are in the slowest time scale dynamics. In bulk water, the slowest time scale dynamics are caused by hydrogen-bond network equilibration, i.e., the making and breaking of hydrogen bonds. For the smallest nanopools, the longest time scale component of the water dynamics is approximately 10 times longer than the dynamics in bulk water. The vibrational echo data for the smallest reverse micelle displays a dependence on the detection wavelength, which may indicate that multiple ensembles of water molecules are being observed.     

Structure, dipole moment and large amplitude motions of 1-benzofuran

The rotational spectrum of 1-benzofuran has been investigated by three different rotational spectroscopy techniques: (i) millimeterwave absorption free jet spectroscopy, useful for a fast assignment of the spectrum; (ii) molecular beam Fourier transform microwave spectroscopy, sensitive to detect less abundant isotopic species in natural abundance; (iii) waveguide conventional microwave spectroscopy, useful for the study of intramolecular dynamics, through the rotational spectra of the vibrational satellites of low energy modes. Besides the rotational spectrum of the ground state of the normal species, the spectra of 9 singly substituted 13C and 18O isotopomers in natural abundance, and of 6 vibrational satellites, have been measured. Precise structural parameters for the molecule, as well as information on the potential energy surface of the low energy vibrations, have been obtained. The dipole moment components have been determined to be micro(a)= 0.216 (2) and micro(b)= 0.720 (3) D, respectively.     

Two-dimensional cross-spectral correlation analysis and its application to time-resolved Fourier transform emission spectra of transient radicals

A spectral analysis method, based on the generalized two-dimensional (2D) vibrational spectra correlation analysis, is developed for deciphering the correlation among the spectral peaks of two different spectra. This 2D cross-spectral correlation (2DCSC) analysis is aimed at revealing the vibrational features associated with a common species in two spectra, each obtained from a system containing multiple species with at least one common species. The cross-spectral correlation is based on the premise that the spectral features of the same species should have the same time and frequency responses toward similar perturbations. The effectiveness of the cross-spectral correlation analysis is first illustrated with model systems, with spectral peaks decaying linearly or exponentially with time, before being applied to analyzing time-resolved emission spectra obtained, by a Fourier transform IR spectrometer, for samples consisting of the vibrationally excited transient cyanooxomethyl radical (OCCN). 2DCSC among the three different sets of time-resolved spectra collected following the photodissociation of three different precursor molecules of OCCN, respectively, allows the identification of the CN and CO stretching modes of this radical.     

UV absorption cross-sections of a series of dimethylbenzaldehydes

The ultraviolet absorption cross-sections of 2,4-, 2,5-, 2,6-, 3,4- and 3,5- dimethylbenzaldehydes are reported in the wavelength range 240-320 nm. The measurements were carried out in the temperature range 318-363 K using two different experimental systems (D 2 lamp-monochromator and D 2 lamp-diode array). The absorption spectra of the five aldehydes have been found to exhibit relatively high absorption cross-sections in the region of the tropospheric interest with maxima around 290 nm. This work provides the first UV cross-section measurements for these aromatic aldehydes. The obtained cross-section values enable us to estimate the tropospheric photolysis lifetimes of these compounds. The results suggest that photolysis could be an important removal process for these species in the troposphere.     

Ultrafast two-dimensional infrared vibrational echo chemical exchange experiments and theory

Ultrafast two-dimensional (2D) infrared vibrational echo experiments and theory are used to examine chemical exchange between solute-solvent complexes and the free solute for the solute phenol and three solvent complex partners, p-xylene, benzene, and bromobenzene, in mixed solvents of the partner and CCl4. The experiments measure the time evolution of the 2D spectra of the hydroxyl (OD) stretching mode of the phenol. The time-dependent 2D spectra are analyzed using time-dependent diagrammatic perturbation theory with a model that includes the chemical exchange (formation and dissociation of the complexes), spectral diffusion of both the complex and the free phenol, orientational relaxation of the complexes and free phenol, and the vibrational lifetimes. The detailed calculations are able to reproduce the experimental results and demonstrate that a method employed previously that used a kinetic model for the volumes of the peaks is adequate to extract the exchange kinetics. The current analysis also yields the spectral diffusion (time evolution of the dynamic line widths) and shows that the spectral diffusion is significantly different for phenol complexes and free phenol.     

Weighted two-band target entropy minimization for the reconstruction of pure component mass spectra: Simulation studies and the application to real systems

A method is proposed, on the basis of a recently developed algorithm--Band Target Entropy Minimization (BTEM)--to reconstruct mass spectra of pure components from mixture spectra. This method is particular useful in dealing with spectral data with discrete features (like mass spectra). Compared to the original BTEM, which has been applied to differentiable spectroscopies such as Fourier-transfer infrared spectroscopy (FTIR), ultraviolet (UV), Raman, and nuclear magnetic resonance (NMR), the latest modifications were obtained through: (1) Reformulating the objective function using the peak heights instead of their derivatives; (2) weighting the abstract vector VT to reduce the effect of noise; (3) using a two-peak targeting strategy (tBTEM) to deal with strongly overlapping peaks; and (4) using exhaustive search to locate all the component spectra. A set of 50 multi-component mass spectra was generated from ten reference experimental pure component spectra. Many of the compounds chosen have common MS fragments and therefore, many of the pure component spectra have considerable intensity in same data channels. In addition, a set of MS spectra from a real system with four components was used to examine the newly developed algorithm. Successful reconstruction of the ten component spectra of the simulated system and the four component spectra of the real system was rapidly achieved using the new tBTEM algorithm. The advantages of the new algorithm and its implication for rapid system identification of unknown mixtures are readily apparent.     

pH分布-光谱法用于背景与待测物波谱严重重叠灰色体系的定量分析

本文基于残差双线性(RBL)的原理并结合数值遗传算法,充分利用这一信息,把pH分布－光谱两维信息引入灰色体系的定量分析中.结果表明,对于背景与待测物波谱严重重叠的体系,本法对待测组分预报有较高的准确度.     

微机处理吸光度数据矩阵(Ⅰ)——求秩法估计光度分析体系中的吸光物种数

微机处理吸光度数据矩阵,用求秩法估计Fe-CAS二元体系、添加表面活性剂的Fe-CAS-CTMAB三元体系及Be-CAS-PVPBS体系中的吸光物种数。在给定实验条件下,Fe-CAS体系申存在4种吸光配合物,而Fe-CAS-CTMAB体系中只有2种配合物。配合物种数减少,是加入表面活性剂后体系的表观摩尔吸光系数增加的原因之一。     

Crystal field splitting of rovibrational transitions of water monomers isolated in solid parahydrogen

We report polarized infrared absorption spectra of water isotopologues isolated in solid parahydrogen (pH2) which reveal the crystal field induced splittings of the 1 01<--0 00 R(0) lines in the nu1 HDO, nu3 D2O, nu3 HDO, and nu3 H2O fundamental bands. For annealed pH2 solids, these spectra also reveal a strong alignment of the hexagonal-close-packed crystallites' c axes with the deposition substrate surface normal. This alignment effect explains our failure to detect the parallel-polarized components of these R(0) lines in spectra of pH2 solids produced on a transparent deposition substrate [M. E. Fajardo et al., J. Mol. Struct. 695, 111 (2004)]. This lesson applies more generally to comparison of solid pH2 spectra obtained in different laboratories. The spectra are consistent with water monomers existing in solid pH2 as very slightly hindered rotors. The individual components of the R(0) absorption lines show a Lorentzian lineshape, with vibrational depopulation the most important source of line broadening.