HOBS methods for enhancing resolution and sensitivity in small DNA oligonucleotide NMR studies

Conformation Analysis and Stereodynamics of Symmetrically ortho-Disubstituted Carvacrol Derivatives

The design and synthesis of analogs of natural products can be a valuable source of medicinal preparations for the pharmaceutical industry. In the present study, the structural elucidation of eleven derivatives of 2,4-dihalogeno substituted synthetic analogues of the natural compound carvacrol was carried out by means of NMR experiments, and of another thirteen by DFT calculations. By selective NOE experiments and the irradiation of CH signals of the isopropyl group, individual conformers were assigned as syn and anti. By comparing GIAO/B3LYP/6-311++G(d,p)-calculated and experimentally measured vicinal 3JCH spin-spin constants, this assignment was confirmed. An unusual relationship is reported for proton-carbon vicinal couplings: 3JCH (180°) < 3JCH (0°). The conformational mobility of carvacrols was studied by 2D EXSY spectra. The application of homonuclear decoupling technique (HOBS) to these spectra simplifies the spectra, improves resolution without reducing the sensitivity, and allows a systematic examination of the rotational barrier of all compounds via their CH signals of the isopropyl group in a wider temperature interval. The rate constants of the isopropyl rotation between syn and anti conformers were determined and the corresponding energy barriers (14-17 kcal/mol) were calculated. DFT calculations of the energy barriers in carvacrol derivatives allowed the determination of the steric origin of the restricted isopropyl rotation. The barrier height depends on the size of the 2- and 4-position substituents, and is independent of the derivatization of the OH group.

Gradient selected pure shift EASY-ROESY techniques facilitate the quantitative measurement of 1H,1H-distance restraints in congested spectral regions

For elucidating molecular structure and dynamics in solution, NMR experiments such as NOESY, ROESY and EXSY have been used excessively over the past decades, to provide interatomic distance restraints or rates for chemical exchange. The extraction of such information, however, is often prohibited by signal overlap in these spectra. To reduce this problem, pure shift methods for improving the spectral resolution have become popular. We report on pure shift EASY-ROESY experiments and their application to extract cross-relaxation rates, proton-proton distances and exchange rates. Homonuclear decoupling (pure shift) is applied in the indirect dimension using the PSYCHE or the perfectBASH technique, to enhance the spectral resolution of severely overcrowded spectral regions. The spectral quality is further improved by using a gradient selected F1-PSYCHE-EASY-ROESY, which produces significantly less t₁-noise than the experiment used previously, as also demonstrated by employing the recently introduced SAN (signal-artefact-noise) plots. Applications include the quantification of distance restraints in a peptide organocatalyst and the extraction of a number of distance restraints in cyclosporine A, which were previously not available for analysis, because they were either located in overcrowded spectral regions or hidden under t₁-noise. Distances extracted and exchange rates obtained are accurate. Also, the 2D gradient-selected F1-perfectBASH-EASY-ROESY with the additional gradient selection proposed herein, which is superior in terms of sensitivity, can be used to accurately quantify cross-relaxation.

Optical Properties of Methyl Orange-Doped Droplet and Photodynamic Therapy of Staphylococcus aureus

Dye-doped droplets are known as mixtures of dyes with uniform solutions of water droplets in a continuous phase of oils with surfactants. To observe the relationship between water droplet structures and surfactant types on optical properties of dyes, a mixture of methyl orange (MO)-doped droplet prepared with benzane and hexane as oils and sodium bis(2-ethylhexyl) sulfosuccinate (AOT) as a surfactant was thus examined using Z-scan instrument, spectrophotometer, and fluorimeter in the present study. The findings revealed that nonlinear refractive (NLR) index, nonlinear absorption (NLA) coefficient, as well as fluorescence intensity of the MO had enhanced following a reduction in the droplet water content induced by changes in the non-centrosymmetric charge density distribution of this pH indicator. Moreover, the MO-doped droplet in a continuous phase of benzene investigated by ¹H nuclear magnetic resonance (NMR) spectroscopy indicated that the MO had been located in the droplet in the vicinity of the hydrophilic part of the surfactant. Furthermore, the MO-doped droplets along with laser radiation were employed to perform antibacterial photodynamic therapy (APDT) of Staphylococcus aureus (S. aureus). It was ultimately concluded that the bacteria colony had also extremely diminished in the group treated by the MO-doped droplet.

perfectBASH: Band-selective homonuclear decoupling in peptides and peptidomimetics

Band selective techniques offer the highest sensitivity of all pure shift approaches and thus are the best choice for decoupling well-separated ¹ H-frequency regions, such as the amide- or the α-proton region of α-peptides. They are inept to fully decouple the amide- and the α-proton region simultaneously, though. Herein, we present a new homonuclear decoupling technique, which extends the capabilities of band selective decoupling using the perfect echo principle. This modification allows a complete backbone decoupling (amide- and α-protons) in peptides and opens band selective homonuclear decoupling to substances with two mutually coupled protons in the spectral range of interest.

A pure shift experiment with increased sensitivity and superior performance for strongly coupled systems

Motivated by the persisting need for enhanced resolution in solution state NMR spectra, pure shift techniques such as Zangger-Sterk decoupling have recently attracted widespread interest. These techniques for homonuclear decoupling offer enhanced resolution in one- and multidimensional proton detected experiments by simplifying multiplet structures. In this work, a modification to the popular Zangger-Sterk technique PEPSIE (Perfect Echo Pure Shift Improved Experiment) is presented, which decouples pairs of spins even if they share the same volume element. This in turn can drastically improve the sensitivity, as compared to classical Zangger-Sterk decoupling, as larger volume elements can be used to collect the detected signal. Most interestingly, even in the presence of moderate strong coupling, the PEPSIE experiment produces clean and widely artifact free spectra. In order to better understand this - to us initially - surprising behaviour we performed analyses using numerical simulations and derived an (approximate) analytical solution from density matrix formalism. We show that this experiment is particularly suitable to study samples with strong signal clustering, a situation which can render classic Zangger-Sterk decoupling inefficient.

Extraction of distance restraints from pure shift NOE experiments

NMR techniques incorporating pure shift methods to improve signal resolution have recently attracted much attention, owing to their potential use in studies of increasingly complex molecular systems. Extraction of frequencies from these simplified spectra enables easier structure determination, but only a few of the methods presented provide structural parameters derived from signal integral measurements. In particular, for quantification of the nuclear Overhauser effect (NOE) it is highly desirable to utilize pure shift techniques where signal overlap normally prevents accurate signal integration, to enable measurement of a larger number of interatomic distances. However, robust methods for the measurement of interatomic distances using the recently developed pure shift techniques have not been reported to date. In this work we discuss some of the factors determining the accuracy of measurements of signal integrals in interferogram-based Zangger-Sterk (ZS) pure shift NMR experiments. The ZS broadband homodecoupling technique is used in different experiments designed for quantitative NOE determination from pure shift spectra. It is shown that the techniques studied can be used for quantitative extraction of NOE-derived distance restraints, as exemplified for the test case of strychnine.

Determination of unresolved heteronuclear scalar coupling constants by J(up)-HSQMBC

Long-range heteronuclear scalar coupling constants provide important structural information, which is necessary for obtaining stereospecific assignment or dihedral angle information. The measurement of small proton-carbon splittings is particularly difficult due to the low natural abundance of carbon-13 and the presence of homonuclear couplings of similar size. Here we present a real-time J-upscaled HSQMBC, which allows the measurement of heteronuclear coupling constants even if they are hidden in the signal linewidth of a regular spectrum.

Measurement of 1H NMR relaxation times in complex organic chemical systems: application of PSYCHE

In complex organic molecules, relaxation times measured from the PSYCHE homonuclear broadband decoupling methods provide a wealth of information on intramolecular dynamics and intermolecular interactions.

Faster and cleaner real-time pure shift NMR experiments

Real-time pure shift experiments provide highly resolved proton NMR spectra which do not require any special processing. Although being more sensitive than their pseudo 2D counterparts, their signal intensities per unit time are still far below regular NMR spectra. In addition, scalar coupling evolution during the individual data chunks produces decoupling sidebands. Here we show that faster and cleaner real-time pure shift spectra can be obtained through the implementation of two parameter alterations. Variation of the FID chunk lengths between individual transients significantly suppresses decoupling sidebands for any kind of real-time pure shift spectra and thus allows for example the analysis of minor components in compound mixtures. Shifting the excitation frequency between individual scans of real-time slice-selective pure shift spectra increases their sensitivity obtainable in unit time by allowing faster repetitions of acquisitions.

Broadband 1H homodecoupled NMR experiments: recent developments, methods and applications

In recent years, a great interest in the development of new broadband 1H homonuclear decoupled techniques providing simplified JHH multiplet patterns has emerged again in the field of small molecule NMR. The resulting highly resolved 1H NMR spectra display resonances as collapsed singlets, therefore minimizing signal overlap and expediting spectral analysis. This review aims at presenting the most recent advances in pure shift NMR spectroscopy, with a particular emphasis to the Zangger-Sterk experiment. A detailed discussion about the most relevant practical aspects in terms of pulse sequence design, selectivity, sensitivity, spectral resolution and performance is provided. Finally, the implementation of the different reported strategies into traditional 1D and 2D NMR experiments is described while several practical applications are also reviewed.