An efficient use of the WATERGATE W5 sequence for observing a ligand binding with a protein receptor

An efficient pulse sequence for observing a ligand binding with a receptor has been developed by incorporating the WATERGATE W5 sequence. In the conventional water ligand observed via gradient spectroscopy (WaterLOGSY) techniques, the water resonance is selectively excited using, e.g. the double-pulsed field gradient spin-echo (DPFGSE) sequence at the initial portion of pulse sequence. In the current version, the modified WATERGATE W5 sequence is incorporated at the initial portion of the pulse sequence, and the resonance at the water frequency can be selectively reserved by the modified WATERGATE W5 sequence. The efficiency of ligand-observed NMR screening techniques has been demonstrated using the human serum albumin (HSA)-tryptophan complex.     

Using perdeuterated surfactant micelles to resolve mixture components in diffusion‐ordered NMR spectroscopy

Diffusion‐ordered NMR spectroscopy resolves mixture components on the basis of differences in their respective diffusion coefficients or molecular sizes. However, when components have near‐identical diffusion coefficients, they are not resolved in the diffusion dimension of a diffusion‐ordered spectroscopy (DOSY) spectrum. Adding surfactant micelles to these mixtures has been shown to enhance resolution when the component molecules interact differentially with the micelles. This approach is similar to that used in electrokinetic chromatography (EKC) where modifiers like micelles or polymers are used to enhance the separation of mixture components. In this study, perdeuterated surfactants are added to analyte mixtures studied with the DOSY technique. Since no micelle resonances appear in the mixture spectra, the difficulty associated with performing biexponential analyses in spectral regions where analyte and surfactant resonances overlap is avoided. The approach is demonstrated using mixtures of peptides with near‐identical diffusion coefficients. Copyright © 2008 John Wiley & Sons, Ltd.     

NMR characterization of 1,1′‐binaphthyl‐2,2′‐diyl hydrogen phosphate binding to chiral molecular micelles

NMR spectroscopy was used to characterize the binding of the chiral compound 1,1′‐binaphthyl‐2,2′‐diyl hydrogen phosphate (BNP) to five molecular micelles with chiral dipeptide headgroups. Molecular micelles have covalent linkages between the surfactant monomers and are used as chiral mobile phase modifiers in electrokinetic chromatography. Nuclear overhauser enhancement spectroscopy (NOESY) analyses of (S)‐BNP:molecular micelle mixtures showed that in each solution the (S)‐BNP interacted predominately with the N‐terminal amino acid of the molecular micelle's dipeptide headgroup. NOESY spectra were also used to generate group binding maps for (S)‐BNP:molecular micelle mixtures. In these maps, percentages are assigned to the (S)‐BNP protons to represent the relative strengths of their interactions with a specified molecular micelle proton. All maps showed that (S)‐BNP inserted into a previously reported chiral groove formed between the molecular micelle's dipeptide headgroup and hydrocarbon chain. In the resulting intermolecular complexes, the (S)‐BNP protons nearest to the analyte phosphate group were found to point toward the N‐terminal Hα proton of the molecular micelle headgroup. Finally, pulsed field gradient NMR diffusion experiments were used to measure association constants for (R) and (S)‐BNP binding to each molecular micelle. These K values were then used to calculate the differences in the enantiomers' free energies of binding, Δ(ΔG). The NMR‐derived Δ(ΔG) values were found to scale linearly with electrokinetic chromatography (EKC) chiral selectivities from the literature. Copyright © 2010 John Wiley & Sons, Ltd.     

Application of diffusion‐edited NMR spectroscopy for selective suppression of water signal in the determination of monomer composition in alginates

Alginate is a linear copolymer of 1‐4 linked β‐D ‐mannuronic acid (M) and 1‐4 linked α‐L ‐guluronic acid (G). The physical properties of these polysaccharides such as gel properties and viscosity are largely correlated to the monomer composition (M/G ratio), the sequence of the polymer and the molecular weight. Determination of the M/G ratio is therefore important and NMR spectroscopy is among the most common methods used to accurately obtain this ratio. Instead of using time consuming, possibly sample altering, acid hydrolysis to reduce the viscosity of the alginate sample prior to analysis, samples of low concentrations can be used. However, this results in a water peak in the NMR spectrum that is several orders of magnitude larger than the alginate signals and water suppression is required. In this article, a diffusion‐edited NMR experiment that suppresses the water peak while retaining the signals of interest has been used to enable correct M/G ratio determination. This approach exploits the difference in translational diffusion between the larger alginate molecules and the smaller water molecules. Using this method, the monomer composition of 20 different alginate powders was determined. The diffusion parameters were optimized to allow measurement for samples covering a large range of M/G ratios and viscosities. Thus, such method should be useful for analyzing large numbers of unknown alginate samples using, for example, automation procedures. Copyright © 2011 John Wiley & Sons, Ltd.     

Solution NMR and X‐Ray Structural Studies on Phthalocyaninatoiron Complexes

The addition of primary amines as solubilizing reagents for phthalocyaninatoiron complexes is shown to afford six‐coordinate bis(amine)phthalocyaninato complexes, i.e., [Fe(amine)₂(pc)] 2 (amine = decan‐1‐amine) and 3 (amine = benzylamine), with the two new N‐donors occupying the trans‐axial positions. The new complexes were characterized by extensive NMR measurements in THF solution. For complex 3 with the benzylamine ligand, the solid‐state structure was determined by X‐ray diffraction methods. Complex 2 is sufficiently labile in THF solution to exchange one amine ligand against CO (gas) affording an equilibrium mixture containing [Fe(amine)(CO)(pc)] 4 .     

NMR and conformational studies of new 5‐phenylpyrrole‐carboxamide derivatives

The ¹H and ¹³C NMR resonances of 22 5‐(5‐substituted‐2‐nitrophenyl)‐1H‐pyrrole‐2‐carboxamides, 22 5‐(5‐substituted‐2‐aminophenyl)‐1H‐pyrrole‐2‐carboxamides, and 9 5‐phenyl‐1H‐pyrrole‐2‐carboxamides were assigned completely using the concerted application of one‐ and two‐dimensional experiments (DEPT, gs‐HMQC and gs‐HMBC). NOE studies and conformational analysis confirm the preferred conformations of such compounds. Copyright © 2009 John Wiley & Sons, Ltd.     

1H, 13C and 15N NMR investigation of a new,condensed hexahydro‐1,3,5‐triazine

Treatment of 2‐acetyl‐2‐methylcyclopentanone with hydrazine hydrate yielded a new condensed hexahydro‐1,3,5‐triazine (3b), which is the first example of the ketimine‐type trimers. A complete ¹H, ¹³C and ¹⁵N NMR assignment of the compound was achieved. Copyright © 2003 John Wiley & Sons, Ltd.     

Size‐exclusion chromatographic NMR of polymer mixtures

The use of chromatographic stationary phases or solvent modifiers to modulate diffusion properties in NMR experiments is now well established. Their use can be to improve resolution in the diffusion domain or to provide an insight into analyte–modifier interactions and, hence, the chromatography process. Here, we extend previous work using size‐exclusion chromatographic stationary phases to the investigation of polymer mixtures. We demonstrate that similar diffusion modulation behaviour is observed with a size‐exclusion chromatographic stationary phase that can be understood in terms of size‐exclusion behaviour. Copyright © 2014 John Wiley & Sons, Ltd.     

Complete assignment of NMR data of 22 phenyl‐1H‐pyrazoles' derivatives

Complete assignment of ¹H and ¹³C NMR chemical shifts and J(¹H/¹H and ¹H/¹⁹F) coupling constants for 22 1‐phenyl‐1H‐pyrazoles' derivates were performed using the concerted application of ¹H 1D and ¹H, ¹³C 2D gs‐HSQC and gs‐HMBC experiments. All 1‐phenyl‐1H‐pyrazoles' derivatives were synthesized as described by Finar and co‐workers. The formylated 1‐phenyl‐1H‐pyrazoles' derivatives were performed under Duff's conditions. Copyright © 2011 John Wiley & Sons, Ltd.     

Self‐diffusion coefficients obtained from proton‐decoupled carbon‐13 spectra for analyzing a mixture of terpenes

In the limit of sufficient sensitivity, natural abundance ¹³C offers a much better spectral resolution than proton NMR. This is due to an important chemical shift range and to proton‐decoupling conditions that yield one peak per carbon with practically no overlap. However, pulsed gradient spin echo experiments, which lead to the diffusion coefficient associated with each peak, have scarcely been employed. In this article, we present and compare different ways to access this quantity and we have effectively verified that, without any precaution, diffusion coefficients cannot be properly determined from standard procedures. The cause of such a failure is decoupling during the gradient pulses. We have used a very simple remedy that proved to be very successful on a model mixture of three monoterpenes and that appears as being of general applicability. Copyright © 2009 John Wiley & Sons, Ltd.     

A new phase modulated binomial‐like selective‐inversion sequence for solvent signal suppression in NMR

A new 8 ‐pulse P hase M odulated binomial‐like selective inversion pulse sequence, dubbed ‘8PM’, was developed by optimizing the nutation and phase angles of the constituent radio‐frequency pulses so that the inversion profile resembled a target profile. Suppression profiles were obtained for both the 8PM and W5 based excitation sculpting sequences with equal inter‐pulse delays. Significant distortions were observed in both profiles because of the offset effect of the radio frequency pulses. These distortions were successfully reduced by adjusting the inter‐pulse delays. With adjusted inter‐pulse delays, the 8PM and W5 based excitation sculpting sequences were tested on an aqueous lysozyme solution. The 8 PM based sequence provided higher suppression selectivity than the W5 based sequence. Two‐dimensional nuclear Overhauser effect spectroscopy experiments were also performed on the lysozyme sample with 8PM and W5 based water signal suppression. The 8PM based suppression provided a spectrum with significantly increased (~ doubled) cross‐peak intensity around the suppressed water resonance compared to the W5 based suppression. Copyright © 2016 John Wiley & Sons, Ltd.     

NMR spectroscopic characterization of new 2,3‐dihydro‐1,3,4‐thiadiazole derivatives

The ¹H and ¹³C NMR resonances of twenty‐seven 2,2‐dimethyl‐5‐(2‐nitrophenyl‐5‐substituted)‐2,3‐dihydro‐1,3,4‐thiadiazoles, and twenty‐seven 3‐acyl‐5‐(2‐amino‐5‐substituted)‐2,2‐dimethyl‐2,3‐dihydro‐1,3,4‐thiadiazoles were assigned completely using the concerted application of one‐dimensional and two‐dimensional experiments (DEPT, HMQC and HMBC). NOESY experiments, X‐ray crystallography and conformational analysis confirm the preferred conformation of these compounds. Copyright © 2012 John Wiley & Sons, Ltd.     

NMR studies on chiral intermediates in the total synthesis of (+)‐biotin from D‐mannose

The chemical structure and stereochemistry of 12 intermediates in the total synthesis of (+)‐biotin starting from D ‐mannose as chiral pool were completely assigned using one‐ and two‐dimensional NMR experiments, including 1D selective NOE, DEPT, COSY, HSQC and HMBC. Copyright © 2010 John Wiley & Sons, Ltd.     

Conformational analysis of 14‐hydroxymodhephene by NMR,x‐ray diffraction and molecular modeling studies

The conformational state of the [3.3.3]propellane framework for 14‐hydroxymodhephene was determined by extensive application of one‐ and two‐dimensional ¹H and ¹³C NMR spectroscopy combined with x‐ray diffraction studies of a synthesized derivative, spectral simulation and molecular modeling. The conformational rigidity of the molecule in solution, established at room temperature, revealed the existence of envelope conformers for both cyclopentane fragments, with C‐7 puckered endo and C‐10 exo with respect to the mean plane containing the B and C rings. Copyright © 2003 John Wiley & Sons, Ltd.     

1H and 13C NMR assignments of new oligo‐bipyridine–phenanthroline hybrids as potential precursors of helicate complexes

A series of oligo‐bipyridine–phenanthroline hybrids, a new class of potential model ligands, were synthesized and their ¹H and ¹³C NMR spectra assigned. Copyright © 2002 John Wiley & Sons, Ltd.     

Conformational analysis. Part 40: a theoretical and NMR investigation of the conformations of cis‐ and trans‐cyclopentane‐1,3‐diol

The conformations of cis‐ ( 1 ) and trans‐cyclopentane‐1,3‐diol ( 2 ) have been studied by ab initio (Gaussian 98) and molecular mechanics (PCMODEL) calculations and by NMR spectroscopy. The calculations gave two low‐energy conformations for ( 1 ), 1A and 1B , both with axial hydroxyl groups. Two conformations with equatorial hydroxyl groups ( 1C and 1D ) were found but with much higher energy (ca 4.0 kcal mol^?1). Five low‐energy conformers were found for 2 . Four were envelope conformations and one a half‐chair. The complete analysis of the 400 MHz ¹H NMR spectra of 1 in a variety of solvents and 2 in chloroform was performed by extensive decoupling experiments, iterative computer analysis and spectral simulation. This gave all the H,H couplings in the molecule, including in 1 a long‐range ⁴J(H,H) coupling between H‐2cis and H‐4,5cis. The ³J(H,H) couplings were used to determine the conformer populations in these molecules. This was initially achieved using the Haasnoot, de Leeuw and Altona equation. to obtain the conformer couplings. It was found that this equation was not accurate for the C·CH₂·CH₂·C fragment in these molecules and the following equation was derived for this fragment from five‐ and six‐ membered cyclic compounds in fixed conformations: (1) The conformer populations were obtained by calculating the conformer couplings which were then compared with the observed couplings. Compound 1 in benzene solution is an approximately equal mixture of conformers 1A and 1B with small (<4%) amounts of 1C and 1D . In the polar solvents acetone and acetonitrile the populations of 1A and 1B are again equal, with 20% of 1C and <2% of 1D . In 2 the major conformers are 2B and 2D with small amounts of 2C , 2E and 2A . These novel findings are considered with previous data on cyclopentanol and cis‐ and trans‐cyclopentane‐1,2‐diol and it is shown that the axial hydroxyl substituent at the fold of the envelope appears to be a major factor in determining the conformational energies of these compounds. Copyright © 2003 John Wiley & Sons, Ltd.     

Gradient‐based solvent suppression methods on a benchtop spectrometer

Benchtop NMR emerges as an appealing alternative to widely extend the scope of NMR spectroscopy in harsh environments and for on‐line monitoring. Obviously, the use of low‐field magnets induces a dramatic reduction of the spectral resolution leading to frequent peak overlaps. This issue is even more serious because applications such as chemical process monitoring involve the use of non‐deuterated solvents, leading to intense and broad peaks overlapping with the signals of interest. In this article, we highlight the need for efficient suppression methods compatible with flowing samples, which is not the case of the common pre‐saturation approaches. Thanks to a gradient coil included in our benchtop spectrometer, we were able to implement modern and efficient solvent suppression blocks such as WET or excitation sculpting to deliver quantitative spectra in the conditions of the on‐line monitoring. While these methods are commonly used at high field, this is the first time that they are investigated on a benchtop setting. Their analytical performance is evaluated and compared under static and on‐flow conditions. The results demonstrate the superiority of gradient‐based methods, thus highlighting the relevance of implementing this device on benchtop spectrometers. The comparison of major solvent suppression methods reveals an optimum performance for the WET‐180‐NOESY experiment, both under static and on‐flow conditions. Copyright © 2016 John Wiley & Sons, Ltd.     

Structure determination of two new indole‐diterpenoids from Penicillium sp. CM‐7 by NMR spectroscopy

Two new indole‐diterpenoids 4b‐deoxy‐1′‐O‐acetylpaxilline (1) and 4b‐deoxypenijanthine A (2) were isolated from the fermentation broth and the mycelia of the soil fungus Penicillium sp. CM‐7, along with three known structurally related compounds, 1′‐O‐acetylpaxilline (3), paspaline (4) and 3‐deoxo‐4b‐deoxypaxilline (5). The structures of compounds 1 and 2 were elucidated by extensive spectroscopic methods, especially 2D NMR, and their absolute configurations were suggested on the basis of the circular dichroism spectral analysis and the NOESY data. Copyright © 2014 John Wiley & Sons, Ltd.     

Identification of bound waters in the solution structure of ribonuclease T1 using the double pulsed field gradient spin‐echo NMR technique for selective water excitation

Novel pulse sequences incorporating the double pulsed field gradient spin‐echo technique are presented that have particular use in identifying macromolecular bound water. The use of these sequences is illustrated using ribonuclease T₁. Five amide protons cross‐relaxing with bound water protons were observed. Examination of the crystal structure revealed that all of these amide protons donate hydrogen bonds or are in close proximity to water molecules with very low temperature factors, indicating that these amide protons are highly correlated with the bound water molecules. This method rapidly provides reliable information for characterizing macromolecular bound water molecules. Copyright © 2002 John Wiley & Sons, Ltd.     

Photo‐induced cross‐linking mechanism in azide–novolac negative photoresists: molecular level investigation using NMR spectroscopy

Negative photoresists are composed of a photoactive component (aromatic azides/bisazides) and cyclized rubber or novolac resin dissolved in an organic solvent. Hydrogen abstraction and/or insertion reaction of the reactive nitrene intermediate formed during photoirradiation of the azide result in a cross‐linked network of the novolac resin. The molecular weight of novolac resin in the exposed part of the photoresist film thus increases compared with that of the unexposed part. This makes the exposed part insoluble in the alkaline developer. Exploiting this change in physical property, a pattern can be transferred to a substrate from a mask. A better understanding of the exact mechanism of cross‐linking reactions is very important to the design of a high‐performing negative photoresist. A quinone–imine‐type complex has been proposed earlier involving the aromatic moiety of novolac resin as the reaction site. A more recent study focuses the attack of nitrene on the methylenic bridge and hydroxyl group of novolac resins, which were found to be responsible for the cross‐linking reaction along with the aromatic moiety of novolac resin. However, in our study no evidence was found for the involvement of a methylenic hydrogen or aromatic moiety of novolac resin in the cross‐linking reaction. The ¹H NMR, ¹³C NMR and DEPT‐135 spectra before and after photolysis indicate that the cross‐linking site is predominantly the hydroxyl group of novolac resin. Multiple reaction sites of attack for the nitrene intermediate have been demonstrated in cashew nut shell liquid (CNSL)‐based novolac resin by ¹H NMR spectroscopy, which in turn further increases the cross‐linked network in the exposed part of a negative photoresist. Copyright © 2003 John Wiley & Sons, Ltd.