Raman optical activity spectra and conformational elucidation of chiral drugs. The case of the antiangiogenic aeroplysinin-1

We present the determination of the conformational properties of aeroplysinin-1 in aqueous solution by means of a combined experimental and theoretical Raman optical activity (ROA) and vibrational circular dichroism (VCD) study. Aeroplysinin-1 is an antiangiogenic drug extracted from the sponge Aplysina cavernicola which has been proved to be a valuable candidate for the treatment of cancer and other antiangiogenic diseases. Our study shows that this molecule possesses the 1S,6R absolute configuration in aqueous solution, where only two conformers are present to a significant level. We discuss in detail the relationships between the chiro-optical ROA and VCD features, and the structural properties of various energy accessible conformers are described. The present work is one of the first studies in which both ROA and VCD have been used as complementary tools for the determination of absolute configuration and dominant solution-state conformations of an unknown therapeutically significant molecule.     

Raman optical activity comes of age

The theory and applications of Raman optical activity (ROA), which measures vibrational optical activity by means of a small difference in the intensity of Raman scattering from chiral molecules in right- and left-circularly polarized incident light or, equivalently, a small circularly polarized component in the scattered light, are briefly reviewed. Thanks to new developments in instrumentation, ROA may be applied to a wide range of chiral molecular species. As well as providing the absolute configuration of small chiral molecules, the application of ab initio methods to the analysis of experimental ROA spectra holds great promise for the determination of the three-dimensional structure and conformational distribution in unprecedented detail. The many structure-sensitive bands in the ROA spectra of aqueous solutions of biomolecules provide detailed structural information including, in the case of proteins, the tertiary fold in addition to secondary structure elements such as helix and sheet. ROA studies of unfolded and partially folded proteins are providing new insight into the residual structure in denatured proteins and the aberrant behaviour of proteins responsible for misfolding diseases. It is even possible to measure the ROA spectra of most intact viruses, from which information about the folds of the major coat proteins and the structure of the nucleic acid core may be obtained. Hopefully this review will stimulate interest in the molecular physics aspects of the subject, and will encourage further theoretical work aimed at extracting maximum information from the plethora of structure-sensitive bands in typical ROA spectra.     

Raman optical activity of an achiral element in a chiral environment

Raman optical activity (ROA) is a relatively new technique used to determine the structure of chiral molecules and is proving useful in the study of biological molecules such as proteins and DNA/RNA. Here, for the first time, we demonstrate the applicability of ROA as a technique to study achiral groups in chiral environments, detecting the induced chirality of N‐(fluorenyl‐9‐methoxycarbonyl) (Fmoc) in a chiral self‐assembled structure of Fmoc‐dipeptides. This technique is therefore of interest to those studying self‐assembled systems that adopt a chiral structure. Copyright © 2009 John Wiley & Sons, Ltd.     

Imaging of reconstituted purple membranes by atomic force microscopy

The organization of bacteriorhodopsin (bR) within reconstituted purple membranes (RPM) was examined using atomic force microscopy (AFM). Five reconstituted species were examined: RPM 3 (bR/native polar lipids/dimyristoylphosphatidylcholine (DMPC) in a 1:9:14 molar ratio), RPM 4 (bR/native polar lipids in a 1:7 molar ratio), RPM 5 (bR/native polar lipids/1,2-di-O-phytanyl-sn-glycerol in a 1:3.5:6.1 molar ratio), RPM 6 (bR/native polar lipids/1,2-di-O-phytanyl-sn-glycero-3-phosphocholine in a 1:3.5:4.9 molar ratio), and RPM 7 (bR/native polar lipids/1,2-diphytanoyl-sn-glycero-3-[phospho-l-serine] in a 1:3.5:4.6 molar ratio). RPM 3 patches adsorbed onto mica exhibit domains of crystallized bR trimers arranged in a hexagonal packing structure, similar to those found in native purple membrane (NPM). These domains are enclosed by DMPC-rich regions. RPM 4 patches were observed to have larger domains of crystallized bR, with trimer orientation 30° different from that found in NPM. The bR-rich domains are enclosed by a large, protein-free, lipid-rich region. The topography of RPM 5 was difficult to resolve as the surface had no discernable patterns or structure. The topographies of RPM 6 and 7 were similar to that found in RPM 3 in that higher domains were formed within the patch adsorbed onto mica. They may contain protein-rich regions, but clear images of protein arrangement could not be obtained using AFM. This may be a result of imaging limitations or of the lack of organization of bR within these domains.     

Surface enhanced Raman optical activity (SEROA)

Raman optical activity (ROA) directly monitors the stereochemistry of chiral molecules and is now an incisive probe of biomolecular structure. ROA spectra contain a wealth of information on tertiary folding, secondary structure and even the orientation of individual residues in proteins and nucleic acids. Extension of ROA to an even wider range of samples could be facilitated by coupling its structural sensitivity to the low-concentration sensitivity provided by plasmon resonance enhancement. This leads to the new technique of surface enhanced ROA, or SEROA, which is complementary to both SERS and ROA. In this tutorial review, we present a survey of theoretical and experimental work undertaken to develop SEROA and discuss these efforts in the context of the ROA technique, and, based on the authors' work, outline possible future directions of research for this novel chiroptical spectroscopy.     

Spectrophotometric analysis of nucleic acids: oxygenation-dependant hyperchromism of DNA

The absorbance at 260 nm (A ₂₆₀) is ubiquitously used for nucleic acid quantification. We show that following oxygenation, DNA solutions experience alterations in both spectral properties (hyperchromism in the UV region, λ _max 260 nm) and DNA conformation. The spectral changes caused by oxygen–DNA complexation are stable for at least several weeks at room temperature or several hours at 37 °C, but are also reversible by purging with nitrogen. Our data indicate that DNA in working solutions might already exist in the oxygen-complexed state, potentially confounding spectrophotometric analyses. Further, the presence of these complexes does not appear to impart cell toxicity in vitro or affect the biophysical functional behaviour (e.g. hybridisation) of DNA. Interestingly, our work also suggests that hybridisation could determine a release of bound oxygen, a phenomenon that could open the way to the use of such systems as oxygen carriers.     

Use of a hydrogel polymer for reproducible surface enhanced Raman optical activity (SEROA)

We present surface enhanced Raman optical activity (SEROA), as well as Raman, SERS and ROA, spectra of D- and L-ribose. By employing a gel forming polyacrylic acid to control colloid aggregation and associated birefringent artefacts we observe the first definitive proof of SEROA through measurement of mirror image bands for the two enantiomers.     

Experimental and theoretical study of the structure and vibrational spectra of valpromide,C7H15CONH2

In this work, we present results of the conformational and vibrational properties of valpromide (Vpd), an amide with antiepileptic activity, studied by IR and Raman spectroscopy at 300 and 77 K, and 300 K, respectively. Experimental data are compared against ab initio calculations performed at B3LYP level with the inclusion of solvatation effects. Experimental results, reinforced by theoretical calculations, point out that Vpd has three conformers on the potential energy surface, with different structures that can be identified in the CO and NH spectral regions. These conformers are defined by different angular arrays of the dihedral angles formed with the CO, C N and C〈 H, C C of the aliphatic chain bonds. The existence of different conformations and structures are discussed on the basis of results derived from electronic localization function (ELF) and natural orbital bond (NBO) analysis. Copyright © 2008 John Wiley & Sons, Ltd.