Crude to leads: a triple-pronged direct NMR approach in coordination with docking simulation.

The screening of compounds that bind to the target of interest (specific proteins) plays a vital role in drug discovery. Usually, the identification of biologically active compounds is done from a library of structurally known compounds. However, we successfully illustrate here, that NMR techniques including saturation transfer difference (STD), transfer nuclear Overhauser spectroscopy (TrNOESY) and STD-TOCSY (total correlation spectroscopy) in combination with separation methods not only enable the rapid and comprehensive screening of active components, but also their unequivocal structural characterization. Furthermore, a time saving for the recognition of leads is also possible with this application. To probe the binding studies, a hydroethanolic fraction of crude extract (1 mg) from natural product (Rauia resinous) was used for the initial assessment with BSA protein. The docking simulation was performed with BSA in the region of Thr190, Arg198, Arg217, Trp213, Arg256, Ala290 and Tyr451 to further refine the active compound towards the leads. Docking results mimic binding as identified by STD, Tr-NOESY and STD-TOCSY. Isovetexine-2-rhamnosoide (2) was found to be most active through group epitope mapping results as well as the docking simulation with relative free energy of -7.2770. This experiment provided excellent results through the direct NMR screening method. Using Bovine Serum Albumin as a reference, we illustrate that this approach offers an excellent way for the first hand detection of the active constituents/inhibitors from natural remedies used in folk medicinal treatments.

Iridium N-heterocyclic carbene complexes as efficient catalysts for magnetization transfer from para-hydrogen.

While the characterization of materials by NMR is hugely important in the physical and biological sciences, it also plays a vital role in medical imaging. This success is all the more impressive because of the inherently low sensitivity of the method. We establish here that [Ir(H)(2)(IMes)(py)(3)]Cl undergoes both pyridine (py) loss as well as the reductive elimination of H(2). These reversible processes bring para-H(2) and py into contact in a magnetically coupled environment, delivering an 8100-fold increase in (1)H NMR signal strength relative to non-hyperpolarized py at 3 T. An apparatus that facilitates signal averaging has been built to demonstrate that the efficiency of this process is controlled by the strength of the magnetic field experienced by the complex during the magnetization transfer step. Thermodynamic and kinetic data combined with DFT calculations reveal the involvement of [Ir(H)(2)(η(2)-H(2))(IMes)(py)(2)](+), an unlikely yet key intermediate in the reaction. Deuterium labeling yields an additional 60% improvement in signal, an observation that offers insight into strategies for optimizing this approach.

ERETIC implemented in diffusion-ordered NMR as a diffusion reference: a clarification.

Additional information as to the objectives of our previous paper entitled 'ERETIC implemented in diffusion-ordered NMR as a diffusion reference' (Magn. Reson. Chem. 2008, 46, S63) is provided. The need for an optimal instrumental stability for the method proposed to be reliably applicable in view of these objectives is emphasized and illustrated.

Improved applicability of DOSY experiments by high resolution probes combined with gradient amplifiers of diffusion units.

Short relaxation times and small diffusion coefficients often impede reliable diffusion experiments due to insufficient signal to noise ratios, especially in low temperature studies, where in the case of small diffusion coefficients in combination with very short T(2) times and substantial convection, double-stimulated-echo experiments are required as last resort of convection-compensating DOSY pulse sequences. Therefore, the combination of a strong gradient amplifier of a diffusion unit with Z-gradient high resolution probes is tested for low temperature applications to combine the advantages of high (1)H resolution, flexible temperature, and multinuclear applications with short gradient durations and diffusion delay. The experimental spectra on phosphoramidite ligands and phosphoramidite-copper complexes show that signal to noise improvements up to 176% were achieved despite longer eddy current delays and increased noise levels. Calculational estimations of the enhancement factors predict special benefits for systems with short transversal relaxation times and small diffusion coefficients and promise even higher enhancement factors for noise level optimized combinations. In addition, an easy way is presented to find fast and effectively relaxation optimized DOSY parameters for the convection-compensated double-stimulated-echo pulse sequence of Jerschow and Müller.

ERETIC implemented in diffusion-ordered NMR as a diffusion reference.

The ERETIC (Electronic Reference To access In vivo Concentrations) technique generates an electronic signal in the NMR spectrometer which is detected simultaneously to the sample FID during the acquisition. The implementation of the ERETIC sequence in any 2D DOSY experimental scheme enables one to generate directly into the raw 2D DOSY spectrum a reference signal with an attenuation simulated to describe a well-defined diffusion behavior. This simulated intensity attenuation can be used to evaluate the output generated by any DOSY data treatment algorithm, in a single as well as multichannel approach and provide insight into their precision, accuracy, scope and limitations. The ERETIC sequence implemented in the standard bipolar pulsed field gradient longitudinal eddy current delay (LED) sequence is illustrated on various algorithms presented previously in the literature for the analysis of the generated ERETIC-DOSY spectra of simulated model systems representing discrete and continuous diffusion profiles in mono- and bi-Gaussian diffusion regimes.

Broadband homodecoupled NMR spectroscopy with enhanced sensitivity.

A new type of broadband homodecoupling technique is described, which is based on the original version of the Zangger-Sterk experiment, but results in a spectrum with higher sensitivity. The homodecoupling is performed by a combination of selective and non-selective 180° RF pulses in the presence of weak rectangular pulsed field gradients in a pseudo 2D experiment. The proposed experiment uses a fast pulsing approach to increase the signal-to-noise ratio per unit time. The recycle delay is significantly shortened typically to about 100 ms. After each scan, the offset of the selective shaped pulse is changed to access fresh magnetisation from adjacent frequency/spatial regions. The physical acquisition time was limited to 40 ms to keep the total length of the pulse sequence as short as possible. Broadband inversion BIP pulses are used instead of 180° hard pulses. They are used pairwise to cancel out unwanted phase shifts over the bandwidth. Reconstruction of the homodecoupled spectrum was done by concatenating the first 10 ms of the FID from each single increment to obtain the final homodecoupled proton FID followed by Fourier transformation. The new method can either be used to acquire broadband homodecoupled spectra in a shorter time or to increase the signal-to-noise ratio compared to the original Zangger-Sterk experiment. Using eight different frequencies can thus lead to a signal to noise gain of a factor √8 or a factor of eight in time.

Molecular structures and associations of humic substances in the terrestrial environment.

Here we show, for the first time, evidence of the primary molecular structures in humic substances (HS), the most abundant naturally occurring organic molecules on Earth, and their associations as mixtures in terrestrial systems. Multi-dimensional nuclear magnetic resonance (NMR) experiments show us that the major molecular structural components in the mixtures operationally defined as HS are aliphatic acids, ethers, esters and alcohols; aromatic lignin derived fragments; polysaccharides and polypeptides. By means of diffusion ordered spectroscopy, distinct diffusion coefficients consistent with relatively low molecular weight molecules were observed for all the components in the mixtures, and saccharides were the largest single class of component present. Liquid chromatography NMR confirmed that HS components can be easily separated and nuclear Overhauser effect (NOE) enhancements support the finding that the components are of relatively low molecular weight