Simulation Of Electron Spin Resonance Spectra Research Articles

Products of Prolonged Autoxidation of Simple Dihydric Phenols in the Presence of Copper(II) Ions – An Electron Spin Resonance Study

Electron spin resonance (ESR) spectroscopy was used for characterizing the products obtained by prolonged autoxidation of simple dihydric phenols (hydroquinone, catechol, and 4-methylcatechol) in the presence of copper(II) ions. Room temperature ESR spectra revealed that both paramagnetic copper(II) ions and organic radicals are present in obtained autoxidation products similarly to the humic acid complexed copper(II) ions. The ratio of organic radical signal intensity to the copper(II) ion signal intensity suggests that the smallest amount of copper(II) ions is incorporated in the hydroquinone autoxidation product while the highest amount of copper(II) ions is incorporated in the autoxidation product of catechol. Satisfactory computer simulations of experimental ESR spectra were obtained by considering only one type of copper(II) ion binding site for hydroquinone autoxidation product and two distinct types of copper(II) ion binding sites for catechol and 4-methylcatechol autoxidation products. Parameters obtained by the computer simulation of ESR spectra indicated prevalent ionic bonding of copper(II) ions in polymeric matrices with tetrahedral distortion at copper(II) ion binding sites and negligible exchange interactions between them. Products obtained by the hydroquinone and catechol autoxidation have more similar characteristics in comparison to the product obtained by the 4-methylcatechol autoxidation where more expressed ionic bonding of copper(II) ions, and smaller tetrahedral distortion are present. Due to the dipolar interactions of oxygen-centered organic radicals in autoxidation products with paramagnetic copper(II) ions, their ESR linewidths are larger and g-values smaller in comparison to the values found in humic acids from various soil types.

Competitive ion-exchange of manganese and gadolinium in titanate nanotubes

Homogeneous Mn2+ and Gd3+ intercalation of scroll-type trititanate nanotubes using a post-synthesis ion exchange method is reported. Compared to Mn2+, Gd3+ ion-exchange shows larger saturation intercalation levels. Upon co-doping, weak interactions between the dopant ions were found to modify the incorporated concentrations. Electron spin resonance (ESR) measurements, performed at several frequencies, confirmed the homogeneous distribution of Mn2+ and Gd3+. Detailed simulation of ESR spectra identified a large spread of the local structural distortions of the occupied sites as a result of a wide range of curvature radii of the titanate nanotubes.

ESR spectroscopy of FeIII ions in sodium silicate glasses

The state of FeIII ions doped in sodium silicate glasses of the composition (100 − x)Na2O-xSiO2−yFe2O3 (x = 75, 81 mol.%; y = 0.05−13 wt.%) was studied by electron spin resonance (ESR). X-band ESR spectra exhibited three resonance signals at g ≈ 2.0, 4.3, and 6. The computer simulation of ESR spectra was performed on the basis of spin-Hamiltonian of rhombic symmetry. The nature of observed signals was interpreted as a combination of five types of FeIII complexes. Three of them were clustered iron ions and two other were isolated paramagnetic ones. The ratio of observed forms was found for different glass compositions and various total amounts of FeIII ions in a matrix containing 0.55, 2.5, 4, 7, and 13 wt.% of Fe2O3.

Using Markov models to simulate electron spin resonance spectra from molecular dynamics trajectories.

Simulating electron spin resonance (ESR) spectra directly from molecular dynamics simulations of a spin-labeled protein necessitates a large number (hundreds or thousands) of relatively long (hundreds of nanoseconds) trajectories. To meet this challenge, we explore the possibility of constructing accurate stochastic models of the spin label dynamics from atomistic trajectories. A systematic, two-step procedure, based on the probabilistic framework of hidden Markov models, is developed to build a discrete-time Markov chain process that faithfully captures the internal spin label dynamics on time scales longer than about 150 ps. The constructed Markov model is used both to gain insight into the long-lived conformations of the spin label and to generate the stochastic trajectories required for the simulation of ESR spectra. The methodology is illustrated with an application to the case of a spin-labeled poly alanine alpha helix in explicit solvent.

L-Tryptophan Radical Cation Electron Spin Resonance Studies: Connecting Solution-Derived Hyperfine Coupling Constants with Protein Spectral Interpretations

Fast-flow electron spin resonance (ESR) spectroscopy has been used to detect a free radical formed from the reaction of l-tryptophan with Ce (4+) in an acidic aqueous environment. Computer simulations of the ESR spectra from l-tryptophan and several isotopically modified forms strongly support the conclusion that the l-tryptophan radical cation has been detected by ESR for the first time. The hyperfine coupling constants (HFCs) determined from the well-resolved isotropic ESR spectra support experimental and computational efforts to understand l-tryptophan's role in protein catalysis of oxidation-reduction processes. l-Tryptophan HFCs facilitated the simulation of fast-flow ESR spectra of free radicals from two related compounds, tryptamine and 3-methylindole. Analysis of these three compounds' beta-methylene hydrogen HFC data along with equivalent l-tyrosine data has led to a new computational method that can distinguish between these two amino acid free radicals in proteins without dependence on isotope labeling, electron-nuclear double resonance, or high-field ESR. This approach also produces geometric parameters (dihedral angles for the beta-methylene hydrogens) that should facilitate protein site assignment of observed l-tryptophan radicals as has been done for l-tyrosine radicals.

ESR studies of spin-labeled membranes aligned by isopotential spin-dry ultracentrifugation: lipid-protein interactions

Electron spin resonance (ESR) studies have been performed on spin-labeled model membranes aligned using the isopotential spin-dry ultracentrifugation (ISDU) method of Clark and Rothschild. This method relies on sedimentation of the membrane fragments onto a gravitational isopotential surface with simultaneous evaporation of the solvent in a vacuum ultracentrifuge to promote alignment. The degree of alignment obtainable using ISDU, as monitored by ESR measurements of molecular ordering for both lipid (16-PC) and cholestane spin labels (CSL), in dipalmitoylphosphatidylcholine (DPPC) model membranes compares favorably with that obtainable by pressure-annealing. The much gentler conditions under which membranes may be aligned by ISDU greatly extends the range of macroscopically aligned membrane samples that may be investigated by ESR. We report the first ESR study of an integral membrane protein, bacteriorhodopsin (BR) in well-aligned multilayers. We have also examined ISDU-aligned DPPC multilayers incorporating a short peptide gramicidin A' (GA), with higher water content than previously studied. 0.24 mol% BR/DPPC membranes with CSL probe show two distinct components, primarily in the gel phase, which can be attributed to bulk and boundary regions of the bilayer. The boundary regions show sharply decreased molecular ordering and spectral effects comparable to those observed from 2 mol% GA/DPPC membranes. The boundary regions for both BR and GA also exhibit increased fluidity as monitored by the rotational diffusion rates. The high water content of the GA/DPPC membranes reduces the disordering effect as evidenced by the reduced populations of the disordered components. The ESR spectra obtained slightly below the main phase transition of DPPC from both the peptide- and protein-containing membranes reveals a new component with increased ordering of the lipids associated with the peptide or protein. This increase coincides with a broad endothermic peak in the DSC, suggesting a disaggregation of both the peptide and the protein before the main phase transition of the lipid. Detailed simulations of the multicomponent ESR spectra have been performed by the latest nonlinear least-squares methods, which have helped to clarify the spectral interpretations. It is found that the simulations of ESR spectra from CSL in the gel phase for all the lipid membranes studied could be significantly improved by utilizing a model with CSL molecules existing as both hydrogen-bonded to the bilayer interface and non-hydrogen-bonded within the bilayer.

Molecular motion and order in oriented lipid multibilayer membranes evaluated by simulations of spin label ESR spectra. Effects of temperature, cholesterol and magnetic field

A simulation method to interpret electron spin resonance (ESR) of spin labelled amphiphilic molecules in oriented phosphatidylcholine multibilayers in terms of a restricted motional model is presented. Order and motion of the cholestane spin label (3-spiro-doxyl-5α-cholestane) incorporated into egg yolk phosphatidylcholine, dipalmitoylphosphatidylcholine and dimyristoylphosphatidylcholine, pure and in mixture with cholesterol, were studied at various termperatures. With egg yolk phosphatidylcholine identical sets of motional parameters were obtained from simulations of ESR spectra obtained at three microwave frequencies (X-, K- and Q-band). With dipalmitoylphosphatidylcholine and dimyristoylphosphatidylcholine analyses of the spectra show that phase transitions occur in samples containing up to 30 mol % cholesterol. The activation energy for the motion of the spin label is about three times larger above than below the phase transition, indicating a more collective motion in the liquid crystalline state than in the gel state. In the liquid crystalline state the activation energy is larger in the pure phosphatidylcholines than with cholesterol added. Additions of cholesterol to egg phosphatidylcholine induces a higher molecular order but does not appreciably affect correlation times. This is in contrast to dipalmitoylphosphatidylcholine where both order and correlation times are affected by the presence of cholesterol. The activation energies follow the same order as the transition temperatures: dipalmitoylphosphatidylcholine > dimyristoylphosphatidylcholine > egg yolk phosphatidylcholine, suggesting a similar order of the cooperativity of the motion of the lipid molecules. Magnetic field-induced effects on egg phosphatidylcholine multibilayers.