Exchange NMR Spectroscopy Research Articles

Interplay between the Conformational Flexibility and Photoluminescent Properties of Mononuclear Pyridinophanecopper(I) Complexes.

The macrocyclic ligand conformational behavior in solution, solid-state structures and the photophysical properties of copper(I) cationic and neutral mononuclear complexes supported by tetradentate N, N'-dialkyl-2,11-diaza[3.3](2,6)-pyridinophane ligands RN4 (R = H, Me, iBu, secBu, neoPent, iPr, Ts) were investigated in detail. Steric properties of the alkyl group at the axial amine in the RN4 ligand were found to strongly affect the conformational preferences and dynamic behavior in solution. Several types of conformational exchange processes were revealed by variable-temperature NMR and 2D exchange spectroscopy, including degenerative exchange in a pseudotetrahedral species as well as exchange between two isomers with different conformers of tri- and tetracoordinate RN4 ligands. These exchange processes are slower for the complexes containing bulky alkyl groups at the amine compared to less sterically demanding analogues. A clear correlation is also observed between the steric bulk of the alkyl substituents and the photoluminescent properties of the derived complexes, with less dynamic complexes bearing bulkier alkyl substituents exhibiting higher absolute photoluminescence quantum yield (PLQY) in solution and the solid state: PLQY in solution increases in the order Me < neoPent < iBu < secBu ≈ iPr < tBu. The electrochemical properties of the cationic complexes [(RN4)CuI(MeCN)]X (X = BF4, PF6) were also dependent on the steric properties of the amine substituent.

An Electric Trap: Electron‐Rich Carbonyl Axis Ends Slow Threading/Dethreading Exchange Dynamics of Pillar[5]arene Ring along Axis

AbstractViologen axes with negative carbonyl ends such as carboxylic acid and carbonylethyl groups were synthesized. The threading/dethreading exchange dynamics of the pillar[5]arene ring and these axes were studied by variable‐temperature 1H NMR and two‐dimensional exchange spectroscopy NMR spectroscopies. The exchange rate increased on introduction of electron‐rich carbonyl ends into the axis: the exchange rate constants of the pillar[5]arene ring along the carboxylic acid‐ended and carbonylethyl‐ended viologen axes were ca. 2000 and 360 times smaller, respectively, than that along the alkyl‐ended viologen axis.

Quantitative Assessment of Xenon Exchange Kinetics with Cucurbit[6]uril in Physiological Saline.

Cucurbit[6]uril and xenon form supramolecular complexes that are of great potential for biosensing by NMR. This host-guest system acts alike a signaler in sensors facilitating the ultrasensitive detection of biomarkers by saturation transfer of chemically exchanging, hyperpolarized 129 Xe. Here, the exchange process is evaluated by NMR exchange spectroscopy utilizing the preparation of anti-parallel longitudinal magnetization with respect to free and host-bound xenon and the variation of xenon concentration. Evidence for dissociative as well as degenerate exchange mechanisms is revealed by a linear regression analysis of the determined exchange rates resulting in rate coefficients of 1131±11 s-1 (2390±70 s-1 ) and 108500±4900 M-1 s-1 (174200±13900 M-1 s-1 ), respectively, and an affinity constant of 289±8 M-1 (278±14 M-1 ) in physiological saline at 298 K (310 K). The results elucidate the supramolecular exchange and underpin the high efficacy for biosensing of this host-guest system. The approach is generally applicable to enhanced host-xenon exchange dynamics, yet slow on the NMR timescale, for quantitative kinetics and biosensing analyses.

Reactivity of Two-Electron-Reduced Boron Formazanate Compounds with Electrophiles: Facile N-H/N-C Bond Homolysis Due to the Formation of Stable Ligand Radicals.

The reactivity of a boron complex with a redox-active formazanate ligand, LBPh2 [L = PhNNC(p-tol)NNPh], was studied. Two-electron reduction of this main-group complex generates the stable, nucleophilic dianion [LBPh2]2–, which reacts with the electrophiles BnBr and H2O to form products that derive from ligand benzylation and protonation, respectively. The resulting complexes are anionic boron analogues of leucoverdazyls. N–C and N–H bond homolysis of these compounds was studied by exchange NMR spectroscopy and kinetic experiments. The weak N–C and N–H bonds in these systems derive from the stability of the resulting borataverdazyl radical, in which the unpaired electron is delocalized over the four N atoms in the ligand backbone. We thus demonstrate the ability of this system to take up two electrons and an electrophile (E+ = Bn+, H+) in a process that takes place on the organic ligand. In addition, we show that the [2e–/E+] stored on the ligand can be converted to E• radicals, reactivity that has implications in energy storage applications such as hydrogen evolution.

Deciphering the Dynamic Interaction Profile of an Intrinsically Disordered Protein by NMR Exchange Spectroscopy.

Intrinsically disordered proteins (IDPs) display a large number of interaction modes including folding-upon-binding, binding without major structural transitions, or binding through highly dynamic, so-called fuzzy, complexes. The vast majority of experimental information about IDP binding modes have been inferred from crystal structures of proteins in complex with short peptides of IDPs. However, crystal structures provide a mainly static view of the complexes and do not give information about the conformational dynamics experienced by the IDP in the bound state. Knowledge of the dynamics of IDP complexes is of fundamental importance to understand how IDPs engage in highly specific interactions without concomitantly high binding affinity. Here, we combine rotating-frame R1ρ, Carr-Purcell-Meiboom Gill relaxation dispersion as well as chemical exchange saturation transfer to decipher the dynamic interaction profile of an IDP in complex with its partner. We apply the approach to the dynamic signaling complex formed between the mitogen-activated protein kinase (MAPK) p38α and the intrinsically disordered regulatory domain of the MAPK kinase MKK4. Our study demonstrates that MKK4 employs a subtle combination of interaction modes in order to bind to p38α, leading to a complex displaying significantly different dynamics across the bound regions.

Probing Transient Release of Membrane-Sequestered Tyrosine-Based Signaling Motif by Solution NMR Spectroscopy.

Membrane sequestration of tyrosine-based signaling motifs of antigen receptors effectively restricts the signaling activities in resting lymphocytes. However, low level of basal signaling in resting cells is required for lymphocyte survival and antigen responsiveness, of which the molecular mechanism remains obscure. Here we probe the transient release of the cytoplasmic domain of the membrane-bound IgG heavy chain (mIgG-tail) by hydrogen exchange NMR spectroscopy, illustrating a dynamic molecular basis for its basal signaling activity. To solve the severe resonance overlap problem in the 2D spectra of mIgG-tail, a non-uniformly sampled pseudo-4D hydrogen exchange NMR experiment has been exploited to quantitatively measure site-specific hydrogen exchange rates. Our solution NMR study reveals transient solvent exposure of the ITT signaling motif that can be further enhanced by calcium ion, and provides insight into the mechanism of lymphocyte basal signaling.

Hyperpolarized 129Xe NMR as an Alternative Approach for Investigating Structure and Transport in Ordered Mesoporous Materials Prepared via Pseudomorphic Transformation

The stepwise pseudomorphic transformation of silica gel and porous glass into MCM-41 (Mobil Composition of Matter No. 41) has been investigated for the first time with hyperpolarized 129Xe NMR. The changes in structure were followed by changes in the line shape and chemical shift of the 129Xe NMR signals, whereby variable temperature (VT)-NMR and selective 1D exchange spectroscopy (EXSY) experiments revealed differences in the mechanism of the transformation, depending on the starting material.

Ex Situ 23Na Solid-State NMR Reveals the Local Na-Ion Distribution in Carbon-Coated Na2FePO4F during Electrochemical Cycling

The potential Na-ion cathode material Na2FePO4F is investigated here by ex situ 23Na solid-state nuclear magnetic resonance (ssNMR) in order to characterize the structure and ion mobility as a function of electrochemical cycling. The use of fast magic angle spinning (MAS) speeds of 65 kHz allows for the collection of high-resolution 23Na NMR spectra that reveal two unique peaks at +450 and −175 ppm, corresponding to the two crystallographically unique Na sites in the material of interest. Two-dimensional NMR exchange spectroscopy results reveal that chemical exchange between the Na ions residing in distinct environments has a maximum hopping rate of ∼200 Hz. The collection of one-dimensional NMR spectra as a function of electrochemical cycling reveals the reproducible formation of a new peak at +320 ppm in the 23Na NMR spectrum at all intermediate states of charge. The appearance of this resonance at +320 ppm is attributed to the fully oxidized (NaFePO4F) phase that is present even upon initial electroche...

Aberrant increase of NMR signal in hydrogen exchange experiments. Observation and explanation

Hydrogen exchange (HX) NMR spectroscopy is widely used for monitoring structure, stability and dynamics of proteins at the level of individual residues. The stochastic replacement of protons by deuterons typically leads to an exponential decrease of the NMR signals. However, an unusual signal increase was observed in HX of several amides for T4 lysozyme L99A. This effect can be attributed to peak sharpening as a result of reduced dipolar relaxation from proximal amide protons that experience more rapid hydrogen/deuterium (H/D) exchange. The behavior was specifically observed at the termini of secondary structure elements, where large differences in protection against H/D exchange are observed. This effect is expected to be more widespread in NMR HX studies, and is important for the accurate determination of protection factors.

Borinic Acid Catalyzed Stereo- and Regioselective Couplings of Glycosyl Methanesulfonates

In the presence of a diarylborinic acid catalyst, glycosyl methanesulfonates engage in regio- and stereoselective couplings with partially protected pyranoside and furanoside acceptors. The methanesulfonate donors are prepared in situ from glycosyl hemiacetals, and are coupled under mild, operationally simple conditions (amine base, organoboron catalyst, room temperature). The borinic acid catalyst not only influences site-selectivity via activation of 1,2- or 1,3-diol motifs, but also has a pronounced effect on the stereochemical outcome: 1,2-trans-linked disaccharides are obtained selectively in the absence of neighboring group participation. Reaction progress kinetic analysis was used to obtain insight into the mechanism of glycosylation, both in the presence of catalyst and in its absence, while rates of interconversion of methanesulfonate anomers were determined by NMR exchange spectroscopy (EXSY). Together, the results suggest that although the uncatalyzed and catalyzed reactions give rise to opposite stereochemical outcomes, both proceed by associative mechanisms.

Equilibrium Dynamics of β-N-Methylamino-L-Alanine (BMAA) and Its Carbamate Adducts at Physiological Conditions.

Elevated incidences of Amyotrophic Lateral Sclerosis/Parkinsonism Dementia complex (ALS/PDC) is associated with β-methylamino-L-alanine (BMAA), a non-protein amino acid. In particular, the native Chamorro people living in the island of Guam were exposed to BMAA by consuming a diet based on the cycad seeds. Carbamylated forms of BMAA are glutamate analogues. The mechanism of neurotoxicity of the BMAA is not completely understood, and BMAA acting as a glutamate receptor agonist may lead to excitotoxicity that interferes with glutamate transport systems. Though the interaction of BMAA with bicarbonate is known to produce carbamate adducts, here we demonstrate that BMAA and its primary and secondary adducts coexist in solution and undergoes a chemical exchange among them. Furthermore, we determined the rates of formation/cleavage of the carbamate adducts under equilibrium conditions using two-dimensional proton exchange NMR spectroscopy (EXSY). The coexistence of the multiple forms of BMAA at physiological conditions adds to the complexity of the mechanisms by which BMAA functions as a neurotoxin.

Observation of α-Helical Hydrogen-Bond Cooperativity in an Intact Protein.

The presence and extent of hydrogen-bonding (H-bonding) cooperativity in proteins remains a fundamental question, which in the past has been studied extensively, mostly by infrared and fluorescence measurements on model peptides. We demonstrate that such cooperativity can be studied in an intact protein by hydrogen/deuterium exchange NMR spectroscopy. The method is based on the fact that substitution of NH by ND in a backbone amide group slightly weakens the N-H···O═C hydrogen bond. Our results show that such substitution at position i in an α-helix impacts the (1)H and (15)N chemical shifts of the amide sites of residues i - 3 to i + 3. Quantum mechanical calculations indicate that the upfield shifts of (1)H and (15)N resonances at site i, observed upon H/D exchanges at sites i - 3, i + 1, i + 2, and i + 3, correspond to a decrease of the ith backbone amide electric dipole moment, which weakens its H-bonding and long-range electrostatic interactions with other backbone amides in the α-helix. These results provide new quantitative insights into the cooperativity of H-bonding in protein α-helices.

Transport properties of catalyst supports studied by pulsed field gradient (PFG) and 2D exchange (EXSY) NMR spectroscopy

2D-EXSY and PFG 129Xe NMR provide a powerful means for probing tortuosity and pore connectivity in bimodal alumina catalysts.

Studies on the Glutathione-Dependent Formaldehyde-Activating Enzyme from Paracoccus denitrificans.

Formaldehyde is a toxin and carcinogen that is both an environmental pollutant and an endogenous metabolite. Formaldehyde metabolism, which is probably essential for all aerobic cells, likely proceeds via multiple mechanisms, including via a glutathione-dependent pathway that is widely conserved in bacteria, plants and animals. However, it is unclear whether the first step in the glutathione-dependent pathway (i.e. formation of S-hydroxymethylglutathione (HMG)) is enzyme-catalysed. We report studies on glutathione-dependent formaldehyde-activating enzyme (GFA) from Paracoccus denitrificans, which has been proposed to catalyse HMG formation from glutathione and formaldehyde on the basis of studies using NMR exchange spectroscopy (EXSY). Although we were able to replicate the EXSY results, time course experiments unexpectedly imply that GFA does not catalyse HMG formation under standard conditions. However, GFA was observed to bind glutathione using NMR and mass spectrometry. Overall, the results reveal that GFA binds glutathione but does not directly catalyse HMG formation under standard conditions. Thus, it is possible that GFA acts as a glutathione carrier that acts to co-localise glutathione and formaldehyde in a cellular context.

The Role of Structural Flexibility and Stability in the Interaction of Serine Proteases with their Inhibitors

Serine proteases and their natural inhibitors have long been served as excellent models for studying (primary, secondary and tertiary) structure - activity relationships of biologically interacting proteins. As protein flexibility has been accepted as a "fourth dimension" of the protein structure, its contribution to the binding process has gained much interest. In this article we review extreme cases of serine protease interactions with canonical serine protease inhibitors that provide unique insights into the dynamics of protein- protein interactions. The major conclusions of our review article are: a) taxon-specific inhibitory effects of two highly homologous protease inhibitors from Schistocerca gregaria (SGCI and SGTI), as investigated by H/D exchange experiments and NMR spectroscopy, are due to their differential flexibilities, b) stabilities of some protease and inhibitor complexes, the wide-spread and increased flexibility of some segments in the protein-protein complexes, as studied by X-ray crystallography and NMR-spectroscopy, appear to be proportional to the physical stability of the complex.

Structure and dynamics of the MKK7–JNK signaling complex

Signaling specificity in the mitogen-activated protein kinase (MAPK) pathways is controlled by disordered domains of the MAPK kinases (MKKs) that specifically bind to their cognate MAPKs via linear docking motifs. MKK7 activates the c-Jun N-terminal kinase (JNK) pathway and is the only MKK containing three motifs within its regulatory domain. Here, we characterize the conformational behavior and interaction mechanism of the MKK7 regulatory domain. Using NMR spectroscopy, we develop an atomic resolution ensemble description of MKK7, revealing highly diverse intrinsic conformational propensities of the three docking sites, suggesting that prerecognition sampling of the bound-state conformation is not prerequisite for binding. Although the different sites exhibit similar affinities for JNK1, interaction kinetics differ considerably. Importantly, we determine the crystal structure of JNK1 in complex with the second docking site of MKK7, revealing two different binding modes of the docking motif correlating with observations from NMR exchange spectroscopy. Our results provide unique insight into how signaling specificity is regulated by linear motifs and, in general, into the role of conformational disorder in MAPK signaling.

Application of selective two-dimensional exchange NMR spectroscopy to the study of molecular dynamic processes

A vector model of the multiplet-selective excitation of spin systems by a three-pulse sequence is considered, and, on this basis, a new two-dimensional exchange NMR spectroscopy technique is suggested. This technique provides means to investigate intramolecular and intermolecular chemical and spin exchanges by observing the dynamic behavior of the multiplet pattern of a nucleus that is scalarwise coupled with the unobservable nucleus undergoing exchange.

Caterpillar track complexes in template-directed synthesis and correlated molecular motion.

Small alterations to the structure of a star-shaped template totally change its mode of operation. The hexapyridyl template directs the conversion of a porphyrin dimer to the cyclic hexamer, but deleting one pyridine site changes the product to the cyclic decamer, while deleting two binding sites changes the product to the cyclic octamer. This surprising switch in selectivity is explained by the formation of 2:1 caterpillar track complexes, in which two template wheels bind inside the nanoring. Caterpillar track complexes can also be prepared by binding the hexapyridyl template inside the 8- and 10-porphyrin nanorings. NMR exchange spectroscopy (EXSY) experiments show that these complexes exhibit correlated motion, in which the conrotatory rotation of the two template wheels is coupled to rotation of the nanoring track. In the case of the 10-porphyrin system, the correlated motion can be locked by binding palladium(II) dichloride between the two templates.

Caterpillar Track Complexes in Template-Directed Synthesis and Correlated Molecular Motion.

Small alterations to the structure of a star‐shaped template totally change its mode of operation. The hexapyridyl template directs the conversion of a porphyrin dimer to the cyclic hexamer, but deleting one pyridine site changes the product to the cyclic decamer, while deleting two binding sites changes the product to the cyclic octamer. This surprising switch in selectivity is explained by the formation of 2:1 caterpillar track complexes, in which two template wheels bind inside the nanoring. Caterpillar track complexes can also be prepared by binding the hexapyridyl template inside the 8‐ and 10‐porphyrin nanorings. NMR exchange spectroscopy (EXSY) experiments show that these complexes exhibit correlated motion, in which the conrotatory rotation of the two template wheels is coupled to rotation of the nanoring track. In the case of the 10‐porphyrin system, the correlated motion can be locked by binding palladium(II) dichloride between the two templates.

Vacancy association energy in scandium doped ceria: 45Sc MAS NMR and 2D exchange spectroscopy study

Oxygen vacancy exchange between Sc ions in 0.5% Sc-doped ceria Sc0.005Ce0.995O0.9975 is investigated by means of 2D exchange spectroscopy (EXSY). 45Sc NMR spectrum of Sc-doped ceria contains two peaks—one corresponding to Sc ions coupled with an oxygen vacancy (Sc-7), and the other corresponding to Sc ions in a regular lattice site surrounded by eight oxygen ions (Sc-8). The vacancy exchange between these two Sc sites generates the cross-peaks in the EXSY spectrum. Relative amplitudes of the cross-peaks provide direct values of the exchange frequency at a given temperature. Arrhenius analysis of the exchange frequency gives the activation energy Ea=1.18eV for the vacancy hopping between Sc sites. Most of this energy barrier is due to association energy which binds the vacancy to Sc3+. Large dopant–vacancy association energy in Sc doped ceria is demonstrated by 45Sc NMR spectrum of La/Sc doubly doped sample, ScxLaxCe1−2xO2−x, x=0.005, where the only line of Sc-7 site shows that all vacancies are bound by Sc3+ ions.