Accurate Extraction of Nanometer Distances in Multimers by Pulse EPR

Pulse electron paramagnetic resonance (EPR) is gaining increasing importance in structural biology. The PELDOR (pulsed electron–electron double resonance) method allows extracting distance information on the nanometer scale. Here, we demonstrate the efficient extraction of distances from multimeric systems such as membrane‐embedded ion channels where data analysis is commonly hindered by multi‐spin effects.     

A deterministic sparse FFT algorithm for vectors with small support

In this paper we consider the special case where a signal x\({\in }\,\mathbb {C}^{N}\) is known to vanish outside a support interval of length m < N. If the support length m of x or a good bound of it is a-priori known we derive a sublinear deterministic algorithm to compute x from its discrete Fourier transform \(\widehat {\mathbf x}\,{\in }\,\mathbb {C}^{N}\). In case of exact Fourier measurements we require only \({\mathcal O}\)(m\(\log \)m) arithmetical operations. For noisy measurements, we propose a stable \({\mathcal O}\)(m\(\log \)N) algorithm.     

Carbonic acid: from polyamorphism to polymorphism

Layers of glassy methanolic (aqueous) solutions of KHCO3 and HCl were deposited sequentially at 78 K on a CsI window, and their reaction on heating in vacuo in steps from 78 to 230 K was followed by Fourier transform infrared (FTIR) spectroscopy. After removal of solvent and excess HCl, IR spectra revealed formation of two distinct states of amorphous carbonic acid (H2CO3), depending on whether KHCO3 and HCl had been dissolved in methanol or in water, and of their phase transition to either crystalline alpha- or beta-H2CO3. The main spectral features in the IR spectra of alpha- and beta-H2CO3 are observable already in those of the two amorphous H2CO3 forms. This indicates that H-bond connectivity or conformational state in the two crystalline phases is on the whole already developed in the two amorphous forms. The amorphous nature of the precursors to the two crystalline polymorphs is confirmed using powder X-ray diffraction. These diffractograms also show that alpha- and beta-amorphous H2CO3 are two distinct structural states. The variety of structural motifs found within a few kJ/mol in a computational search for possible crystal structures provides a plausible rationalization for (a) the observation of more than one amorphous form and (b) the retention of the motif observed in the amorphous form in the corresponding crystalline form. The polyamorphism inferred for carbonic acid from our FTIR spectroscopic and powder X-ray diffraction studies is special since two different crystalline states are linked to two distinct amorphous states. We surmise that the two amorphous states of H2CO3 are connected by a first-order-like phase transition.     

57Fe Mössbauer spectroscopy predicts superstructure for K0.08[Cu(II)(N,N'app)Cl]2[Fe(III)(CN)6].0.92H3O.3H2O

The compound [Cu(N,N'app)Cl](2)[Fe(CN)(6)].xH(2)O, with N,N'app being bis(N,N'-3-aminopropylpiperazine), was prepared and its structure determined by single crystal X-ray analysis, confirming a ratio of two copper complexes to one iron complex; (57)Fe M?ssbauer spectra showed three quadrupole doublets typical of iron(iii) low spin species which call for the presence of a superstructure.     

Remarkable steric effects and influence of monodentate axial ligands l on the spin-crossover properties of trans-[FeII(N4 ligand)L] complexes

Iron(II) complexes obtained from tetradentate, rigid, linear N4 ligands have been investigated to appraise the influence of steric effects and the impact of trans-coordinated anions on the spin-transition behavior. As expected, the well-designed ligands embrace the metal center, resulting in octahedral iron(II) complexes where the basal plane is fully occupied by the pyridine/pyrazole N4 ligand, while anions or solvent molecules are exclusively axially coordinated. Precursor complexes, namely, [Fe(bpzbpy)(MeOH)2](BF4)2 (where bpzbpy symbolizes the ligand 6,6'-bis(N-pyrazolylmethyl)-2,2'-bipyridine) and [Fe(mbpzbpy)(MeOH)2](BF4)2 (where mbpzbpy symbolizes the ligand 6,6'-bis(3,5-dimethyl-N-pyrazolmethyl)-2,2'-bipyridine), have been used for the in situ preparation of a series of structural analogues via the exchange of the weakly coordinated trans methanol molecules by various anions, such as thiocyanate, selenocyanate, or dicyanamide. The magnetic properties of all seven iron(II) compounds thus obtained have been investigated. Two iron(II) complexes, i.e., [Fe(bpzbpy)(NCS)2] and [Fe(bpzbpy)(NCSe)2], exhibit gradual spin-crossover (SCO) properties typical of isolated mononuclear species with weak cooperative interaction. These two SCO materials have been studied by M?ssbauer spectroscopy, and the light-induced excited spin state trapping effect has been investigated, revealing the possibility to induce the spin-transition both by temperature variation and by light irradiation. A correlation between steric/anion effect and SCO behavior is suggested.     

Enrichment of deuterium oxide at hydrophilic interfaces in aqueous solutions

The structure of water at aqueous interfaces is of the utmost importance in biology, chemistry, and geology. We use neutron reflectivity and quartz crystal microbalance to probe an interface between hydrophilic quartz and bulk liquid solutions of H2O/D2O mixtures. We find that near the interface the neutron scattering length density is larger than in the bulk solution and there is an excess adsorbed mass. We interpret this as showing that there is a region adjacent to the quartz that is enriched in D2O and extends 5-10 nm into the solution. This suggests caution when interpreting results where D2O is substituted for H2O in aqueous interfacial chemistry.     

Unusual spin transition behavior in 2,6-bis((pyrazol-3-yl)-pyridine) iron(II)-bis-oxalato-platinate(II)

[Fe(bpp)2][Pt(ox)2].H2O (with bpp=2,6-bis(pyrazol-3-yl)-pyridine and ox=oxalate) was prepared, and its spin crossover behavior was characterized. The two-step spin transition behavior changes over several cycles. The original behavior is restored when the sample is allowed to relax for a week. Furthermore, the ST exhibits a strong dependence on the heating and cooling rate. Heating the compound at 1 K/min leads to a spin transition with a third step and a second plateau at gammaHS approximately 0.8. Quenching the sample to 77 K also affects the spin transition behavior. The kinetic relaxation is followed after quenching and after light-induced excited spin state trapping experiments.     

Using freezing and drying techniques of emulsions for the microencapsulation of fish oil to improve oxidation stability

Epidemiological investigations show that n-3-polyunsaturated fatty acids (PUFA) have a protective effect with respect to coronary heart disease. For a long time fish oil has been known as a source of PUFA. The successful incorporation of fish oil into the normal food components offers an opportunity to increase the intake of PUFA, but fish oil has to be protected against oxidation preferably by microencapsulation. The high temperatures during the traditional spray-drying microencapsulation process lead to an increased oxidation of the PUFA. The authors demonstrate the application of a freeze-drying technique with respect to the production of dried microencapsulated fish oil with high quality and oxidation stability. The influence of emulsion parameters, freezing parameters and formulation on the stability of a dried fish oil emulsion is presented and illustrated. The used procedure gave a product with a good oxidation stability which is available as pellets or powder. It was found that the stability was mainly influenced by the freezing rate and the used encapsulation carbohydrate, whereby the powder showed a better shelf life than the pellets. Concluding, it can be summarized that the production of microencapsulated fish oil by freezing and subsequent freeze-drying offers an opportunity to achieve a product with a good oxidation stability.     

Cationic Xylan Derivatives with High Degree of Functionalization

Xylan from birch wood was characterized regarding both the supramolecular structure (X-ray, CP/MAS ¹³C-NMR) and the sugar composition. The reaction of the birch wood xylan with 2,3-epoxypropyltrimethylammonium chloride in 1,2-dimethoxyethane as slurry medium yields water-soluble, cationic 2-hydroxypropyltrimethylammonium xylan derivatives with high degree of substitution (DS). The DS values up to 1.6 can be controlled by adjusting the molar ratio in a one step synthesis. The structure of the cationic xylan derivatives was confirmed by means of DEPT(135) NMR spectroscopy. Film forming properties of cationic xylan derivatives were investigated with SEM measurements.     

The Resolved Mutual Information Function as a Structural Fingerprint of Biomolecular Sequences for Interpretable Machine Learning Classifiers

In the present article we propose the application of variants of the mutual information function as characteristic fingerprints of biomolecular sequences for classification analysis. In particular, we consider the resolved mutual information functions based on Shannon-, Rényi-, and Tsallis-entropy. In combination with interpretable machine learning classifier models based on generalized learning vector quantization, a powerful methodology for sequence classification is achieved which allows substantial knowledge extraction in addition to the high classification ability due to the model-inherent robustness. Any potential (slightly) inferior performance of the used classifier is compensated by the additional knowledge provided by interpretable models. This knowledge may assist the user in the analysis and understanding of the used data and considered task. After theoretical justification of the concepts, we demonstrate the approach for various example data sets covering different areas in biomolecular sequence analysis.