Isolated β‐Turn Model Systems Investigated by Combined IR/UV Spectroscopy

The functionality of bioactive molecules sensitively depends on their structure. For the investigation of intrinsic structural properties, molecular beam experiments combined with laser spectroscopy have proven to be a suitable tool. Herein we present an analysis of the two isolated tripeptide model systems Ac‐Phe‐Tyr(Me)‐NHMe and Boc‐Phe‐Tyr(Me)‐NHMe. For this purpose, mass‐selective combined IR/UV spectroscopy is applied to both substances in a molecular beam experiment. The comparison of the experimental data with DFT calculations, including different functionals as well as dispersion corrections, allows an assignment of both tripeptide models to β‐turns formed independently from the protection groups and supported by the interaction of the two aromatic chromophores.     

IR,Raman, and UV/Vis Spectra of Corannulene for Use in Possible Interstellar Identification

The spectroscopic characterization of corannulene (C₂₀H₁₀) is carried out by several techniques. The high purity of the material synthesized for this study was confirmed by gas chromatography‐mass spectrometry (GC‐MS). During a high‐performance liquid chromatography (HPLC) process, the absorption spectrum of corannulene in the ultraviolet (UV) and visible (vis) ranges is obtained. The infrared (IR) absorption spectrum is measured in CsI pellets, and the Raman scattering spectrum is recorded for pure crystal grains. In addition to room temperature measurements, absorption spectroscopy in an argon matrix at 12 K is also performed in the IR and UV/Vis ranges. The experimental spectra are compared with theoretical Raman and IR spectra and with calculated electronic transitions. All calculations are based on the density functional theory (DFT), either normal or time‐dependent (TDDFT). Our results are discussed in view of their possible application in the search for corannulene in the interstellar medium.     

GXXXG‐Mediated Parallel and Antiparallel Dimerization of Transmembrane Helices and Its Inhibition by Cholesterol: Single‐Pair FRET and 2D IR Studies

Small‐residue‐mediated interhelical packings are ubiquitously found in helical membrane proteins, although their interaction dynamics and lipid dependence remain mostly uncharacterized. We used a single‐pair FRET technique to examine the effect of a GXXXG motif on the association of de novo designed (AALALAA)₃ helices in liposomes. Dimerization occurred with sub‐second lifetimes, which was abolished by cholesterol. Utilizing the nearly instantaneous time‐resolution of 2D IR spectroscopy, parallel and antiparallel helix associations were identified by vibrational couplings across helices at their interface. Taken together, the data illustrate that the GXXXG motif controls helix packing but still allows for a dynamic and lipid‐regulated oligomeric state.     

Mixed IR/Vis Two‐Dimensional Spectroscopy: Chemical Exchange beyond the Vibrational Lifetime and Sub‐ensemble Selective Photochemistry

Two‐dimensional exchange spectroscopy (2D EXSY) is a powerful method to study the interconversion (chemical exchange) of molecular species in equilibrium. This method has recently been realized in femtosecond 2D‐IR spectroscopy, dramatically increasing the time resolution. However, current implementations allow the EXSY signal (and therefore the chemical process of interest) only to be tracked during the lifetime (T₁) of the observed spectroscopic transition. This is a severe limitation, as typical vibrational T₁ are only a few ps. An IR/Vis pulse sequence is presented that overcomes this limit and makes the EXSY signal independent of T₁. The same pulse sequence allows to collect time‐resolved IR spectra after electronic excitation of a particular chemical species in a mixture of species with strongly overlapping UV/Vis spectra. Different photoreaction pathways and dynamics of coexisting isomers or of species involved in different intermolecular interactions can thus be revealed, even if the species cannot be isolated because they are in rapid equilibrium.     

Proton/Hydrogen‐Transfer Coordinate of 2,5‐Dihydroxybenzoic Acid Investigated in a Supersonic Beam: Combined IR/UV Spectroscopy in the S0, S1, and D0 States

As a model system for intramolecular proton/hydrogen‐transfer coordinates, the structure of 2,5‐dihydroxybenzoic acid is investigated for the ground, first electronically excited and also the ionic state. Combined IR/UV spectroscopy in molecular‐beam experiments is applied and the experimental results are interpreted by the application of DFT and CASPT2 methods. No proton or hydrogen transfer is observed, but evidence is given for a hydrogen dislocation of the intramolecular hydrogen bond in the S₁ state and to lesser extent in the D₀ state. To obtain direct information on the proton/hydrogen‐transfer coordinate, IR spectra are recorded both in the region of the OH and especially the CO stretching vibrations by also applying two new variants of combined IR/UV spectroscopy for the S₁ and D₀ states. The CO groups are directly involved in the hydrogen bond and, in contrast to the hydrogen‐bonded OH groups, the CO stretching frequencies can be observed in all electronic states.     

Two‐Dimensional Infrared Spectroscopy Reveals the Structure of an Evans Auxiliary Derivative and Its SnCl4 Lewis Acid Complex

Determining the structure of reactive intermediates is the key to understanding reaction mechanisms. To access these structures, a method combining structural sensitivity and high time resolution is required. Here ultrafast polarization‐dependent two‐dimensional infrared (P2D‐IR) spectroscopy is shown to be an excellent complement to commonly used methods such as one‐dimensional IR and multidimensional NMR spectroscopy for investigating intermediates. P2D‐IR spectroscopy allows structure determination by measuring the angles between vibrational transition dipole moments. The high time resolution makes P2D‐IR spectroscopy an attractive method for structure determination in the presence of fast exchange and for short‐lived intermediates. The ubiquity of vibrations in molecules ensures broad applicability of the method, particularly in cases in which NMR spectroscopy is challenging due to a low density of active nuclei. Here we illustrate the strengths of P2D‐IR by determining the conformation of a Diels–Alder dienophile that carries the Evans auxiliary and its conformational change induced by the complexation with the Lewis acid SnCl₄, which is a catalyst for stereoselective Diels–Alder reactions. We show that P2D‐IR in combination with DFT computations can discriminate between the various conformers of the free dienophile N‐crotonyloxazolidinone that have been debated before, proving antiperiplanar orientation of the carbonyl groups and s‐cis conformation of the crotonyl moiety. P2D‐IR unequivocally identifies the coordination and conformation in the catalyst–substrate complex with SnCl₄, even in the presence of exchange that is fast on the NMR time scale. It resolves a chelate with the carbonyl orientation flipped to synperiplanar and s‐cis crotonyl configuration as the main species. This work sets the stage for future studies of other catalyst–substrate complexes and intermediates using a combination of P2D‐IR spectroscopy and DFT computations.     

Preparation of ZnO Nanowires and Study of Surface‐adsorbate Interaction by Fourier‐Transform Infrared Spectroscopy

To study the surface‐adsorbate properties of ZnO nanowires, a hydrothermal method was modified to grow ZnO nanowires directly on ZnSe, which were then characterized by attenuated total reflection infrared (ATR‐IR) spectroscopy. To prepare ZnO nanowires directly on ATR sensing element of ZnSe, ZnO seed layers were first formed by annealing of ZnO seeds on ZnSe surfaces. The ZnO seed layers then were exposed to growth solution, forming ZnO nanowires directly on the ATR crystals. The interaction properties of the resulting surfaces were studied by an ATR‐IR method. The diameter, length and distribution of the ZnO nanowires can be tuned by adjusting the growth conditions, particularly the growing time and the concentrations of reagents. Two surfaces, namely Zn‐rich and Zn‐O ion‐pair surfaces were studied in detail for their adsorption properties toward compounds bearing different functional groups. By examination of several volatile organic compounds (VOCs), it was found that the Zn‐rich surface is less selective and interacts with compounds bearing the functional groups of amino and hydroxyl. The Zn‐O ion‐pair surface is more selective and a much stronger interaction was observed with non‐aromatic amino compounds. These results indicate that the improving of the selectivity of a ZnO‐based sensing device can be achieved by tuning the surface structure of the ZnO nanomaterials.     

Protein Structure Determination with Three- and Four-Dimensional NMR Spectroscopy

Structural biology has made important contributions to the understanding of biological processes. In recent years an increasing amount of structural information has also been derived from NMR spectroscopic studies, often with special emphasis on dynamic aspects. The introduction of three- and four-dimensional techniques has greatly simplified protein structure determination by NMR Spectroscopy, which has in fact become routine. In the past it was more of an art to interpret the complicated NOESY spectra of proteins, but the application of three-dimensional techniques now makes the interpretation of protein spectra straightforward. In this review we discuss the most important multidimensional NMR techniques along with suitable applications. The emphasis is put less on the discussion of individual pulse sequences than on their application to the structure determination of proteins.     

Signatures of beta-peptide unfolding in two-dimensional vibrational echo spectroscopy: a simulation study.

An ensemble of exciton Hamiltonians for the amide-I band of the folded and unfolded states of a helical beta-heptapeptide is generated using a molecular dynamics (MD) simulation. The correlated fluctuations of its parameters and their signatures in two-dimensional (2D) vibrational echo spectroscopy are computed. This technique uses infrared pulse sequences to provide ultrafast snapshots of molecular structural fluctuations, in analogy with multidimensional NMR. The present study demonstrates that, by combining a method of calculating the vibrational Hamiltonian from MD snapshots and the nonlinear exciton equations (NEE), it may be possible to simulate realistic multidimensional IR spectra of chemically and biologically interesting systems.     

Dual-frequency 2D IR on interaction of weak and strong IR modes

Dual-frequency 2D IR heterodyne photon-echo spectroscopy of C[triple bond]N and C=O stretching vibrational modes in 2-cyanocoumarin is reported. We have shown that the interaction among these modes provides convenient and useful structural constraints for molecules. Implementation of two pulse sequences, 4, 4, and 6 microm and 6, 6, and 4 microm, allowed the clear determination of contributions caused by vibrational relaxation. Positive correlation between C[triple bond]N and C=O frequency distributions was observed in 2-cyanocoumarin. Because C[triple bond]N modes are highly localized and have frequencies in a spectral region with minimal water absorption, the C[triple bond]N/C=O interactions have a strong potential for use as structural reporters in proteins. In addition to CN/CO peaks, the cross-peaks responsible for the C[triple bond]N/C=C interaction are also observed in the 2D IR spectra, where C=C is a coumarin ring stretching mode. We have demonstrated that 2D IR spectroscopy can utilize interactions of strong IR modes with weak local modes as structural reporters.     

Is Our Way of Thinking about Excited States Correct? Time‐Resolved Dispersive IR Study on p‐Nitroaniline

Low‐lying excited electronic states of an important class of molecules known as push–pull chromophores are central to understanding their potential nonlinear optical properties. Here we report that a combination of high‐sensitivity nanosecond time‐resolved dispersive IR spectroscopy and DFT calculations on p‐nitroaniline (PNA), a prototypical push–pull molecule, reveals that PNA in the lowest excited triplet state has a partial quinoid structure. In this structure, the quinoid configuration is restricted to a part of the phenyl ring adjacent to the NO₂ group. The partial quinoid structure of PNA cannot be explained by a commonly used hybrid of a neutral form and a zwitterionic charge‐transfer form. Our findings not only cast doubt on the general applicability of the classical way of looking at excited states, based exclusively on characteristic resonance structures, but also provide deeper insights into excited‐state structure of highly polarizable molecular systems.     

Thinner,Smaller, Faster: IR Techniques To Probe the Functionality of Biological and Biomimetic Systems

New techniques in vibrational spectroscopy are promising for the study of biological samples as they provide exquisite spatial and/or temporal resolution with the benefit of minimal perturbation of the system during observation. In this Minireview we showcase the power of modern infrared techniques when applied to biological and biomimetic systems. Examples will be presented on how conformational changes in peptides can be traced with femtosecond resolution and nanometer sensitivity by 2D IR spectroscopy, and how surface‐enhanced infrared difference absorption spectroscopy can be used to monitor the effect of the membrane potential on a single proton‐transfer step in an integral membrane protein. Vibrational spectra of monolayers of molecules at basically any interface can be recorded with sum‐frequency generation, which is strictly surface‐sensitive. Chemical images are recorded by applying scanning near‐field infrared microscopy at lateral resolutions better than 50 nm.     

Infrared Spectroscopy of a Wilkinson Catalyst in a Room‐Temperature Ionic Liquid

Homogeneous catalysis in room‐temperature ionic liquids (ILs) constitutes a most interesting field of research with high potential in technical applications. As concerns the hydrogenation of unsaturated hydrocarbons, Wilkinson’s compound RhCl(PPh₃)₃ represents a catalyst that provides high selectivity and activity. Herein, we demonstrate the application of infrared spectroscopy to the quantitative analysis of the Wilkinson catalyst in the IL 1‐ethyl‐3‐methylimidazolium acetate ([EMIM][OAc]). Our study demonstrates for the first time the quantitative, accurate and reproducible determination of the concentration of a rhodium catalyst by means of IR spectroscopy and, moreover, allows the investigation of intermolecular interactions. Spectral features, located mainly in the fingerprint region of the IR spectrum, are identified revealing the influence of the dissolved catalyst on the IL’s vibrational structure. In particular, the ring‐bending mode of the imidazolium ring shows a frequency shift as a function of catalyst concentration, probably due to hydrogen‐bond formation between the IL cation and the Rh complex. The results show the potential of IR spectroscopy both for application as a quick process control technology in catalytic processes and as a tool for better understanding of IL–catalyst interactions.     

UV‐induced crosslinking of ring opening metathesis block copolymer micelles

Statistical and amphiphilic block copolymers bearing cinnamoyl groups were prepared by ring opening metathesis polymerization (ROMP). The UV‐induced [2 + 2] cycloaddition reaction of polymer bound cinnamic acid groups was studied in polymer thin films as well as in block copolymer micelles. In both cases, exposure to UV‐light for 10 min led to a crosslinking conversion of about 60%, as determined by FT‐IR spectroscopy and UV–vis absorption measurements. Time based IR‐spectroscopy revealed a maximum conversion of 78% reached after an irradiation time of about 16 min. For micelles obtained from polymers bearing 5 mol % or more cinnamoyl groups, the crosslinking reaction proceeded smoothly, yielding in crosslinked particles which were stable in a non‐selective solvent (CHCl₃). Diameters determined by dynamic light scattering in the selective solvent (MeOH) were similar for both, non‐crosslinked and crosslinked micelles, whereas diameters of crosslinked micelles in the non‐selective solvent (CHCl₃) were significantly larger compared to MeOH samples. This strategy of direct self assembly of block‐copolymers in a selective solvent followed by “clean” crosslinking, without the need for additional crosslinking reagents or crosslinking initiators, provides a straight forward approach toward ROMP‐based polymeric nano‐particles. © 2008 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 46: 2402–2413, 2008     

Analyses of the surfaces of concrete by Raman and FT‐IR spectroscopies: comparative study of hardened samples after demoulding and after organic post‐treatment

Concrete surfaces were studied by two spectroscopic techniques, FT‐IR (in ATR mode) and Raman, to establish a nondestructive method to analyze the distribution of hydrated and organic phases. The surface composition of ordinary clinker, polished concrete, concrete after demoulding, and coated concrete as used in building construction was studied. The clinker's mineral phases and the polished concrete were first analyzed by Raman spectroscopy to determine a spectrum database of the specific phases located on the surface of the concrete. Then, both spectroscopic techniques were used to analyze, directly, the surface of hardened concrete after demoulding. No impact of roughness or porosity was highlighted using Raman spectroscopy; many cementitious, or hydrated phases (alite, belite, tricalcium aluminate, ferrite, portlandite and ettringite) were clearly identified. FT‐IR in ATR mode only identified some hydrated phases: portlandite and CaO? SiO₂? H₂O (C? S? H), but organic residues from the demoulding oil were characterized by this technique. Furthermore, the convenience of using these techniques together was tested by analyzing the composition of concrete surfaces coated by different organic post‐treatments. FT‐IR spectroscopy was useful to identify the main organic groups at the concrete surface, whereas Raman spectroscopy was especially able to characterize the mineral/hydrated phases under a thick post‐treatment layer (constituted of polyester varnish). Due to their own specificities, these complementary techniques should be used together to easily identify all the mineral phases and organic residues/coatings on concrete surfaces. Copyright © 2010 John Wiley & Sons, Ltd.     

IR spectroscopic study of the reactivity of aromatic 5-acyltetrazoloisoindoles

An IR study of the 5-acyl tetrazoloisoindoles solvent sensitive bands permit to assign the bands associated to the valence mode of the CO bond in the 1700-1500 cm⁻¹ area. This provides an explanation of the unusual stability of these newly synthesised compounds. Moreover, in air exposed solutions we observe the formation of unique degradation products. A mechanism for their formation and their probable structure was proposed with the help of IR spectroscopy.     

IR Probes of Protein Microenvironments: Utility and Potential for Perturbation

A variety of IR‐active moieties with absorptions that are distinct from those of proteins have been developed as probes of local protein environments, including carbon‐deuterium bonds (C?D), cyano groups (CN), and azides (N₃); however, no systematic analysis of their utility in a protein has been published. Previously, we characterized the N‐terminal Src homology 3 domain of the murine adapter protein Crk‐II (nSH3) with C?D bonds site‐selectively incorporated throughout, and showed that it is relatively rigid and electrostatically heterogeneous and that it thermally unfolds under equilibrium conditions via a simple two‐state mechanism. We now report the synthesis and characterization of eight variants of nSH3 with CN and/or N₃ probes at five of the same positions. In agreement with previous studies, the position‐dependent spectra suggest that both probes are predominantly sensitive to hydration, and not to their local electrostatic environments. Importantly, both probes also tend to significantly perturb the protein if they are not incorporated at surface‐exposed positions. Thus, unlike C?D labels, which are both sensitive to their environment and non‐perturbative, CN and N₃ probes should be used with caution.     

Ultrafast Vibrational Population Transfer Dynamics in 2‐Acetylcyclopentanone Studied by 2D IR Spectroscopy

2‐Acetylcyclopentanone (2‐ACP), which is a β‐dicarbonyl compound, undergoes keto–enol isomerization, and its enol tautomers are stabilized by a cyclic intramolecular hydrogen bond. 2‐ACP (keto form) has symmetric and asymmetric vibrational modes of the two carbonyl groups at 1748 and 1715 cm^?1, respectively, which are well separated from the carbonyl modes of its enol tautomers in the FTIR spectrum. We have investigated 2‐ACP dissolved in carbon tetrachloride by 2D IR spectroscopy and IR pump–probe spectroscopy. Vibrational population transfer dynamics between the two carbonyl modes were observed by 2D IR spectroscopy. To extract the population exchange dynamics (i.e., the down‐ and uphill population transfer rate constants), we used the normalized volumes of the cross‐peaks with respect to the diagonal peaks at the same emission frequency and the survival and conditional probability functions. As expected, the downhill population transfer time constant (3.2 ps) was measured to be smaller than the uphill population transfer time constant (3.8 ps). In addition, the vibrational population relaxation dynamics of the two carbonyl modes were observed to be the same within the experimental error and were found to be much slower than vibrational population transfer between two carbonyl modes.     

Next‐Generation Heteronuclear Decoupling for High‐Field Biomolecular NMR Spectroscopy

Ultra‐high‐field NMR spectroscopy requires an increased bandwidth for heteronuclear decoupling, especially in biomolecular NMR applications. Composite pulse decoupling cannot provide sufficient bandwidth at practical power levels, and adiabatic pulse decoupling with sufficient bandwidth is compromised by sideband artifacts. A novel low‐power, broadband heteronuclear decoupling pulse is presented that generates minimal, ultra‐low sidebands. The pulse was derived using optimal control theory and represents a new generation of decoupling pulses free from the constraints of periodic and cyclic sequences. In comparison to currently available state‐of‐the‐art methods this novel pulse provides greatly improved decoupling performance that satisfies the demands of high‐field biomolecular NMR spectroscopy.     

Compensating Pulse Imperfections in Solid‐State NMR Spectroscopy: A Key to Better Reproducibility and Performance

The power and versatility of NMR spectroscopy is strongly related to the ability to manipulate NMR interactions by the application of radio‐frequency (rf) pulse sequences. Unfortunately, the rf fields seen by the spins differ from the ones programmed by the experimentalist. Pulse transients, i.e., deviations of the amplitude and phase of the rf fields from the desired values, can have a severe impact on the performance of pulse sequences and can lead to inconsistent results. Here, we demonstrate how transient‐compensated pulses can greatly improve the efficiency and reproducibility of NMR experiments. The implementation is based on a measurement of the characteristics of the resonance circuit and does not rely on an experimental optimization of the NMR signal. We show how the pulse sequence has to be modified to use it with transient‐compensated pulses. The efficiency and reproducibility of the transient‐compensated sequence is greatly superior to the original POST‐C7 sequence.