The increasing problem of multidrug resistance (MDR) in bacteria calls for discovery of new molecules and diagnostic methodologies that are effective against a wide range of microbial pathogens. We have studied the role of alexidine dihydrochloride (alex) as a bioaffinity ligand against lipopolysaccharide (LPS), a pathogen-associated surface marker universally present on all Gram-negative bacteria. While the activity of alex against bacteria is biologically known, little information exists on its mechanism of action or binding stoichiometry. We have used nuclear magnetic resonance (NMR), fluorescence, and surface plasmon resonance (SPR) spectroscopies to probe the binding characteristics of alex and LPS molecules. Our results indicate that LPS:alex stoichiometry lies between 1:2 and 1:4 and has a dissociation constant ( K) of 38 μM that is mediated through electrostatic interactions between the negatively charged phosphate groups present on LPS and the positively charged guanidinium groups present in alex. Further, molecular dynamics (MD) simulations performed to determine the conformational interaction between the two molecules show good agreement with the experimental results, which substantiate the potential of alex molecule for LPS neutralization and hence, development of efficient in vitro diagnostic assays.
Nuclear magnetic resonance (NMR) is a powerful tool for structural and dynamical studies of molecules. Although widely applicable, the search for novel spectral editing methods that facilitate spectral assignment of peaks in high-resolution NMR is highly desirable. Earlier, the sensitivity of lifetime of spin states (spin-lattice relaxation time, T1) and coherences (spin-spin relaxation time, T2) to the immediate environment was utilized for spectral editing in solution NMR. Long-lived states (LLS) and coherences (LLCs) were recently uncovered to have longer and more domain sensitive lifetime than other type of states and coherences. Herein, this longevity and increased sensitivity of LLS and LLC lifetime is utilized for more enhanced dispersion in relaxation editing in NMR. The generality of the method as a powerful tool in spectral editing is confirmed with molecules containing a mixture of strongly and weakly coupled spin systems and finally with metabolomic mixture. Extension to insensitive nuclei enhanced by polarization transfer (INEPT), correlation spectroscopy (COSY), and heteronuclear single quantum coherence (HSQC) are also demonstrated.
In this paper, we presented a new design strategy for a peptide-based chiral supramolecular assembly. A series of aryl linked peptides 1a-1f were designed and synthesized. The bis-urea peptides 1a-1c self-assembled into a helical supramolecular arrangement resembling Trp zipper (Trpzip) structures present in proteins. Interestingly, a dihydrogenphosphate anion, upon binding to the assembly, could invert the chirality of the supramolecular assembly which could be reverted to the original by the addition of water. This chiroptical behavior can be repeated several times. Microscopy analysis showed that the supramolecular helices were assembled to form spheres. In addition to that, we also found that the handedness of supramolecular chirality is dependent on the position of Trp residues on the aromatic scaffold. Both left and right handed helical supramolecular arrangements were obtained by placing l-Trp residues at different positions on the aromatic core. The unprecedented Trpzip in these designed small peptidomimetics will stimulate more work in the area of peptide-based assemblies.
Online monitoring by flow NMR spectroscopy is a powerful approach to study chemical reactions and processes, which can provide mechanistic understanding, and drive optimisations. However, some of the most useful methods for mixture analysis and reaction monitoring are not directly applicable in flow conditions. This is the case of classic diffusion‐ordered NMR spectroscopy (DOSY) methods, which can be used to separate the spectral information for mixture's components. We describe a fast and flow‐compatible diffusion NMR experiment that makes it possible to collect accurate diffusion data for samples flowing at up to 3 mL/min. We use it to monitor the synthesis of a Schiff base with a flow‐tube with a time resolution of approximately 2 minutes. The one‐shot flow‐compatible diffusion NMR described here open many avenues for reaction monitoring applications.
We show that the NMR spectra of components in a mixture can be separated using 2D data acquired in less than one second, and an algorithm that is executed in...
Long-lived coherences
(LLCs) in a pair of coupled protons have
long lifetimes and hence decreased line width and increased spectral
resolution. Fourier transformation of the damped oscillatory decay
of the LLC also provides coupling information on the spin system.
In a three-spin system, unlike in the two-spin case, the peaks in
an LLC spectrum are observed at combinations of the coupling constants.
This attribute is used to determine the relative signs of the coupling
constants in weakly and strongly coupled model systems. In addition,
it is shown that a coupling constant in a three-spin system that is
unobservable in the 1H NMR spectrum, as is the case in
bispidinone, a molecule of significance in peptidomimetics, may be
determined from the LLC spectrum.
Diffusion‐ordered NMR spectroscopy (DOSY NMR) is a widely used method for the analysis of mixtures. It can be used to separate the spectra of a mixture's components and to analyse interactions. The classic implementation of DOSY experiments, based on an incrementation of the diffusion‐encoding gradient area, requires several minutes or more to collect a 2D data set. Spatially‐encoded (SPEN) DOSY makes it possible to collect a complete data set in less than 1 s, by spatial parallelisation of the effective gradient area. While several short descriptions of SPEN DOSY experiments have been reported, a thorough characterisation of its features and its practical use is missing, and this hinders the use of the method. Here, we present the unusual principles and implementation of the SPEN DOSY experiment, an understanding of which is useful to make optimal use of the method. The encoding and acquisition steps are described, and the parameter relations that govern the setup of SPEN DOSY experiments are discussed. The influence of key parameters, including on sensitivity, is illustrated experimentally on mixtures of small molecules. This study should be useful for the setup of SPEN DOSY experiments, which are particularly useful for systems that evolve in time.
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