Nuclear inelastic scattering and Mössbauer spectroscopy as local probes for ligand binding modes and electronic properties in proteins: vibrational behavior of a ferriheme center inside a β-barrel protein

In this work, we present a study of the influence of the protein matrix on its ability to tune the binding of small ligands such as NO, cyanide (CN(-)), and histamine to the ferric heme iron center in the NO-storage and -transport protein Nitrophorin 2 (NP2) from the salivary glands of the blood-sucking insect Rhodnius prolixus. Conventional M?ssbauer spectroscopy shows a diamagnetic ground state of the NP2-NO complex and Type I and II electronic ground states of the NP2-CN(-) and NP2-histamine complex, respectively. The change in the vibrational signature of the protein upon ligand binding has been monitored by Nuclear Inelastic Scattering (NIS), also called Nuclear Resonant Vibrational Spectroscopy (NRVS). The NIS data thus obtained have also been calculated by quantum mechanical (QM) density functional theory (DFT) coupled with molecular mechanics (MM) methods. The calculations presented here show that the heme ruffling in NP2 is a consequence of the interaction with the protein matrix. Structure optimizations of the heme and its ligands with DFT retain the characteristic saddling and ruffling only if the protein matrix is taken into account. Furthermore, simulations of the NIS data by QM/MM calculations suggest that the pH dependence of the binding of NO, but not of CN(-) and histamine, might be a consequence of the protonation state of the heme carboxyls.     

A new ONO3- trianionic pincer-type ligand for generating highly nucleophilic metal-carbon multiple bonds

Appending an amine to a C═C double bond drastically increases the nucleophilicity of the β-carbon atom of the alkene to form an enamine. In this report, we present the synthesis and characterization of a novel CF(3)-ONO(3-) trianionic pincer-type ligand, rationally designed to mimic enamines within a metal coordination sphere. Presented is a synthetic strategy to create enhanced nucleophilic tungsten-alkylidene and -alkylidyne complexes. Specifically, we present the synthesis and characterization of the new CF(3)-ONO(3-) trianionic pincer tungsten-alkylidene [CF(3)-ONO]W═CH(Et)(O(t)Bu) (2) and -alkylidyne {MePPh(3)}{[CF(3)-ONO]W≡C(Et)(O(t)Bu)} (3) complexes. Characterization involves a combination of multinuclear NMR spectroscopy, combustion analysis, DFT computations, and single crystal X-ray analysis for complexes 2 and 3. Exhibiting unique nucleophilic reactivity, 3 reacts with MeOTf to yield [CF(3)-ONO]W═C(Me)(Et)(O(t)Bu) (4), but the bulkier Me(3)SiOTf silylates the tert-butoxide, which subsequently undergoes isobutylene expulsion to form [CF(3)-ONO]W═CH(Et)(OSiMe(3)) (5). A DFT calculation performed on a model complex of 3, namely, [CF(3)-ONO]W≡C(Et)(O(t)Bu) (3'), reveals the amide participates in an enamine-type bonding combination. For complex 2, the Lewis acids MeOTf, Me(3)SiOTf, and B(C(6)F(5))(3) catalyze isobutylene expulsion to yield the tungsten-oxo complex [CF(3)-ONO]W(O)((n)Pr) (6).     

A polymer surfactant corona dynamically replaces water in solvent-free protein liquids and ensures macromolecular flexibility and activity

The observation of biological activity in solvent-free protein-polymer surfactant hybrids challenges the view of aqueous and nonaqueous solvents being unique promoters of protein dynamics linked to function. Here, we combine elastic incoherent neutron scattering and specific deuterium labeling to separately study protein and polymer motions in solvent-free hybrids. Myoglobin motions within the hybrid are found to closely resemble those of a hydrated protein, and motions of the polymer surfactant coating are similar to those of the hydration water, leading to the conclusion that the polymer surfactant coating plasticizes protein structures in a way similar to hydration water.     

Aqueous room temperature synthesis of cobalt and zinc sodalite zeolitic imidizolate frameworks

Sodalite zeolitic imidazolate frameworks containing Co (ZIF-67) and Zn (ZIF-8) were synthesized at room temperature under aqueous conditions in 10 min. A trialkylamine deprotonated the 2-methylimidazole ligand and nucleated the frameworks. Furthermore, the ligand acted as a structure directing agent in place of an organic solvent.     

Exploring the origin of tip‐enhanced Raman scattering; preparation of efficient TERS probes with high yield

Tip‐enhanced Raman scattering (TERS) spectroscopy is a promising technique for nanoscale chemical analysis. However, there are several challenges preventing widespread application of this technology, including reproducible fabrication of efficient TERS probes. These problems reflect a lack of clear understanding of the origins of, and the parameters influencing TERS. It is believed that the coating characteristics at the apex of the tip have a major effect on the near‐field optical enhancement and thus the TERS activity of a metalized probe. Here we show that the aspect ratio of the tip can play a significant role in the efficiency of TERS probes. We argue that the electrostatic field arising from the lightning‐rod effect has a substantial role in the observed TERS effect. This argument is supported by ‘edge‐enhanced Raman scattering’ which is shown for a noble metal film. Furthermore, it is reported that an associated tip‐surface‐enhanced Raman scattering effect can be achieved by using a TERS‐inactive metalized probe on a surface‐enhanced Raman spectroscopy‐inactive roughened surface. This observation can be explained by an interparticle enhancement of the electromagnetic field. Copyright © 2011 John Wiley & Sons, Ltd.     

Riemannian manifolds in noncommutative geometry

We present a definition of Riemannian manifold in noncommutative geometry. Using products of unbounded Kasparov modules, we show one can obtain such Riemannian manifolds from noncommutative spin^c${}^c$ manifolds; and conversely, in the presence of a spin^c${}^c$ structure. We also show how to obtain an analogue of Kasparov’s fundamental class for a Riemannian manifold, and the associated notion of Poincaré duality. Along the way we clarify the bimodule and first-order conditions for spectral triples.     

Inequalities for martingale transforms and related characterizations of Hilbert spaces

Suppose that f is a martingale taking values in a Banach space B and g is its transform by a deterministic sequence of numbers in {−1,1}, such that sup_n‖g_n‖≥1 almost surely. We show that a certain family of Φ-estimates for f holds true if and only B is a Hilbert space.     

Surface immobilization of bio-functionalized cubosomes: sensing of proteins by quartz crystal microbalance

A strategy for tethering lipid liquid crystalline submicrometer particles (cubosomes) to a gold surface for the detection of proteins is reported. Time-resolved quartz crystal microbalance (QCM-D) was used to monitor the cubosome-protein interaction in real time. To achieve specific binding, cubosomes were prepared from the nonionic surfactant phytantriol, block-copolymer, Pluronic F-127, and a secondary biotinylated lipid, 1,2-distearoyl-sn-glycero-3-phosphoethanolamine-N-[biotinyl(polyethyleneglycol)-2000], which enabled attachment of the particles to a neutravidin (NAv)-alkanethiol monolayer at the gold surface of the QCM sensor chip. A second set of cubosomes was further functionalized with addition of the glycolipid (G(M1)) to facilitate a specific binding uptake of the protein, cholera toxin B subunit (CT(B)), from solution. QCM-D confirmed the specificity of the cubosome-NAv binding. The analysis of titration experiments, also performed with QCM, suggests that an optimal concentration of cubosomes is required for the efficient packing of the particles at the surface: high cubosome concentrations lead to chaotic cubosome binding onto the surface, sterically inhibiting surface attachment, or require significant reorganization to permit uniform cubosome coverage. The methodology enabled the straightforward preparation of a complex nanostructured edifice, which was then used to specifically capture analyte proteins (cholera toxin B subunit or free NAv) from solution, supporting the potential for development of this approach as a biosensing platform.