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PubMed2003

Determination of the resolution of a multichannel Raman spectrometer using Fourier transform Raman spectra.

The resolution of a grating polychromator for Raman spectroscopy has been simulated by measuring spectra on a Fourier transform (FT) Raman spectrometer and selecting the FT of the apodization function so that the instrument line shape function mimics the triangular spectral slit function of the polychromator. To this end, FT-Raman spectra measured with a nominal resolution of 0.5 cm-1 were modified through the application of sinc2 apodization functions of various widths to simulate spectra measured on a polychromator at lower resolution. The success of this approach was validated using the 1085 cm-1 band of calcite. When the modified FT-Raman spectra were compared with spectra measured on a grating polychromator equipped with slits of widths 100 and 150 microns, the resolution of the polychromator was estimated to be 6.3 and 7.8 cm-1, respectively. This conclusion was verified experimentally by measuring the separation of two bands in the Raman spectrum of BaSO4 at approximately 460 cm-1.

Algorithms↗
PubMed1995

Combination of potentiometry and resonance Raman spectroscopy for the analysis of a redox protein.

This paper describes apparatus and procedures for combining resonance Raman and optical absorption spectroscopies with potentiometry for the study of redox-active heme proteins. A specially designed anaerobic titration cell is described which allows for the laser excitation of the sample and the monitoring of both Raman scattered light and directly transmitted light from an optical source. New procedures for utilization of A/D and D/A converters on a standard I/O computer card are described, which allow for computer-controlled potentiometry and coulometry. The system was tested with cytochrome c, a well-characterized respiratory protein. The correct values for the midpoint potential and electron number of the Nernst equation were obtained both by the optical absorption and resonance Raman measurements.

Cytochrome c Group↗
PubMed2002

Dihedral angles of tripeptides in solution directly determined by polarized Raman and FTIR spectroscopy.

The amide I mode of the peptide linkage is highly delocalized in peptides and protein segments due to through-bond and through-space vibrationally coupling between adjacent peptide groups. J. Phys. Chem. B. 104:11316-11320) used coherent femtosecond infrared (IR) spectroscopy to determine the excitonic coupling energy and the orientational angle between the transition dipole moments of the interacting amide I modes of cationic tri-alanine in D(2)O. Recently, the same parameters were determined for all protonation states of tri-alanine by analyzing the amide I bands in the respective IR and isotropic Raman spectra (. J. Am. Chem. Soc. 119:1720-1726.). In both studies, the dihedral angles phi and psi were then obtained by utilizing the orientational dependence of the coupling energy obtained from ab initio calculations on tri-glycine in vacuo (. J. Raman Spectrosc. 29:81-86) to obtain an extended 3(1) helix-like structure for the tripeptide. In the present paper, a novel algorithm for the analysis of excitonic coupling between amide I modes is presented, which is based on the approach by Schweitzer-Stenner et al. but avoids the problematic use of results from ab initio calculations. Instead, the dihedral angles are directly determined from infrared and visible polarized Raman spectra. First, the interaction energy and the corresponding degree of wave-function mixing were obtained from the amide I profile in the isotropic Raman spectrum. Second, the depolarization ratios and the amide I profiles in the anisotropic Raman and IR-absorption spectra were used to determine the orientational angle between the peptide planes and the transition dipole moments, respectively. Finally, these two geometric parameters were utilized to determine the dihedral angles phi and psi between the interacting peptide groups. Stable extended conformations with dihedral angles in the beta-sheet region were obtained for all protonation states of tri-alanine, namely phi(+) = -126 degrees, psi(+) = 178 degrees; phi(+/-) = -110 degrees, psi(+/-) = 155 degrees; and phi(-) = -127 degrees, psi(-) = 165 degrees for the cationic, zwitterionic, and anionic state, respectively. These values reflect an extended beta-helix structure. Tri-glycine was found to be much more heterogeneous in that different extended conformers coexist in the cationic and zwitterionic state, which yield a noncoincidence between isotropic and anisotropic Raman scattering. Our study introduces vibrational spectroscopy as a suitable tool for the structure analysis of peptides in solution and tripeptides as suitable model systems for investigating the role of local interactions in determining the propensity of peptide segments for distinct secondary structure motifs.

Biophysical Phenomena↗
PubMed2002

Fourier Transform-Raman spectroscopic study of natural resins of archaeological interest.

Resins from several different genera are studied using Fourier transform (FT)-Raman spectroscopy. Tree resins can be broadly divided into those that contain diterpenoid components and those that contain triterpenoid components. The diterpenoid resins analyzed are from the genera Pinus, Cedrus, and Agathis (kauri resin) and the triterpenoid resins examined are samples from Pistacia, Boswellia (frankincense), and Commiphora (myrrh) genera. A protocol is developed to nondestructively distinguish diterpenoid and triterpenoid resins and to differentiate the genera within the two types. The effects of oxidation on the discrimination of the FT-Raman spectra are considered.

Archaeology↗
PubMed1993

Depolarization of Raman scattering from some nucleotides of RNA and DNA.

Depolarization ratios of Raman bands, excited at 488.0 nm, of guanosine-5'-monophosphoric acid, cytidine-5'-monophosphoric acid, adenosine-5'-monophosphoric acid, thymidine-5'-monophosphoric acid, and uridine-5'-monophosphoric acid have been measured in their H2O and D2O solutions in the spectral region from 300 to 1800 cm-1. For comparison, the disodium salt of 2'-deoxyadenosine-5'-monophosphoric acid was also subjected to the depolarization measurement in its H2O solution. The results have been correlated with possible orientations of the principal axes of the Raman scattering tensors as well as with the relative magnitudes of the tensor components. Results should be useful for future polarized Raman studies of synthetic and natural DNA.

DNA↗
PubMed2001

Ultrafast dynamics of myoglobin probed by time-resolved resonance Raman spectroscopy.

Recent experimental work carried out in this laboratory on the ultrafast dynamics of myoglobin (Mb) is summarized with a stress on structural and vibrational energy relaxation. Studies on the structural relaxation of Mb following CO photolysis revealed that the structural change of heme itself, caused by CO photodissociation, is completed within the instrumental response time of the time-resolved resonance Raman apparatus used (approximately 2 ps). In contrast, changes in the intensity and frequency of the iron-histidine (Fe-His) stretching mode upon dissociation of the trans ligand were found to occur in the picosecond regime. The Fe-His band is absent for the CO-bound form, and its appearance upon photodissociation was not instantaneous, in contrast with that observed in the vibrational modes of heme, suggesting appreciable time evolution of the Fe displacement from the heme plane. The band position of the Fe-His stretching mode changed with a time constant of about 100 ps, indicating that tertiary structural changes of the protein occurred in a 100-ps range. Temporal changes of the anti-Stokes Raman intensity of the v4 and v7 bands demonstrated immediate generation of vibrationally excited heme upon the photodissociation and decay of the excited populations, whose time constants were 1.1 +/- 0.6 and 1.9 +/- 0.6 ps, respectively. In addition, the development of the time-resolved resonance Raman apparatus and prospects in this research field are described.

Carbon Monoxide↗
PubMed2006

Raman mapping of low-content API pharmaceutical formulations. I. Mapping of Alprazolam in Alprazolam/Xanax tablets.

PURPOSE: Raman chemical imaging of API was carried out to provide information on whether there is any structural difference between the commercial Xanax and Alprazolam tablets (the API content less than 1% w/w in both cases) in the batches with low and good recovery. MATERIALS AND METHODS: Raman mapping spectra were collected from the flattened surfaces of six tablets. The mapping spectra were analyzed by principal component analysis because the Raman signal of the API (Alprazolam) was not reliably detected from the raw spectra. The complexity of the obtained grey-scale score images was such that no information about the domain sizes of the API could be obtained and thus binarization was applied to simplify these images. RESULTS: It was found that reliable detection of the Raman signal of the API was only achieved after principal component analysis was employed with the mapping being facilitated by a surprising similarity between a high principal component loading and the spectrum of the API. The binarization was successful only if the outlying pixels in the score images are eliminated. SUMMARY: The final chemical images represent quantitative characterization of the domains of the API in the tablets in contrast to chemical images of tablets that have been reported so far in the literature which have usually been descriptive only. The abundance of Alprazolam in all six tablets of Xanax and Alprazolam, respectively, was very similar. The domain sizes were found to be below 75 mum in diameter for all the tablets analyzed.

Alprazolam↗
PubMed2006

Fourier transform infrared and Raman spectral investigations of 5-aminoindole.

Fourier transform infrared (FT-IR) and Raman (FT-Raman) spectra of 5-aminoindole has been recorded and analysed. The FT-IR spectrum of the compound was recorded in a BrukerIFS 66 V spectrometer in the range 4000-400 cm(-1) and the FT-Raman spectrum was also recorded in the same instrument in the region 3500-100 cm(-1). Observed frequencies for normal modes are compared with those calculated form normal co-ordinate analysis. The shift in the frequencies of the fundamental modes with the substituent amino group and the mixing of different normal modes are discussed with the help of potential energy distribution (PED) calculated through normal co-ordinate analysis.

Carbon↗
PubMed2006

Surface-enhanced hyper-Raman spectra and enhancement factors for three SERS chromophores. SEHRS spectra on Ag films at pulse energies below 2 pJ.

Hyper-Raman scattering, the nonlinear (two-photon excited) analogue of ordinary Raman scattering, is usually considered to be a weak process that requires high-energy pulsed laser excitation. The sensitivity can be improved greatly by making use of two-photon electronic resonance and/or electromagnetic field enhancement on metal nanoparticle surfaces. Here we demonstrate that hyper-Raman spectra can be obtained from organic dyes on silver colloidal nanoparticle films at laser powers below 1 mW of average power (pulse energies below 2 pJ). These results open the door to exploiting the potential advantages of hyper-Raman scattering for analytical applications.

Carbocyanines↗
PubMed2006

Angle-dependent terahertz time-domain spectroscopy of amino acid single crystals.

The measurement of absorption spectra using angle-dependent terahertz (THz) time-domain spectroscopy for amino acid single crystals of l-cysteine and l-histidine is reported for the first time. Linearly polarized THz radiation enables us to observe angle-dependent far-infrared absorption spectra of amino acid single crystals and determine the direction of the oscillating dipole of the molecules in the 20-100 cm(-1) range. By comparing the THz spectra of a single crystal and powder, we found that there was a clear hydrogen-bond peak in the crystal spectrum as a result of the larger hydrogen-bond network. The low-temperature THz spectra of amino acid microcrystals showed more intermolecular vibrational modes than those measured at room temperature. An ab initio frequency calculation of a single amino acid molecule was used to predict the intramolecular vibrational modes. The validity of the calculation models was confirmed by comparing the results with experimentally obtained data in the Raman spectral region.

Amino Acids↗
PubMed2006

Surface-enhanced Raman scattering for the rapid discrimination of bacteria.

Raman spectroscopy is attracting interest for the rapid identification of bacteria and fungi and is now becoming accepted as a potentially powerful whole-organism fingerprinting technique. However, the Raman effect is so weak that collection times are lengthy, and this insensitivity means that bacteria must be cultured to gain enough biomass, which therefore limits its usefulness in clinical laboratories where high-throughput analyses are needed. The Raman effect can fortunately be greatly enhanced (by some 10(3)-10(6)-fold) if the molecules are attached to, or microscopically close to, a suitably roughened surface; a technique known as surface-enhanced Raman scattering (SERS). In this study we investigated SERS, employing an aggregated silver colloid substrate, for the analysis of a closely related group of bacteria belonging to the genus Bacillus. Each spectrum took only 20 s to collect and highly reproducible data were generated. The multivariate statistical technique of principal components-discriminant function analysis (PC-DFA) was used to group these bacteria based on their SERS fingerprints. The resultant ordination plots showed that the SERS spectra were highly discriminatory and gave accurate identification at the strain level. In addition, Bacillus species also undergo sporulation, and we demonstrate that SERS peaks that could be attributed to the dipicolinic acid biomarker, could be readily generated from Bacillus spores.

Bacillus↗