Dynamic identification of phosphopeptides using immobilized metal ion affinity chromatography enrichment, subsequent partial beta-elimination/chemical tagging and matrix-assisted laser desorption/ionization mass spectrometric analysis

The enrichment of phosphopeptides using immobilized metal ion affinity chromatography (IMAC) and subsequent mass spectrometric analysis is a powerful protocol for detecting phosphopeptides and analyzing their phosphorylation state. However, nonspecific binding peptides, such as acidic, nonphosphorylated peptides, often coelute and make analyses of mass spectra difficult. This study used a partial chemical tagging reaction of a phosphopeptide mixture, enriched by IMAC and contaminated with nonspecific binding peptides, following a modified beta-elimination/Michael addition method, and dynamic mass analysis of the resulting peptide pool. Mercaptoethanol was used as a chemical tag and nitrilotriacetic acid (NTA) immobilized on Sepharose beads was used for IMAC enrichment. The time-dependent dynamic mass analysis of the partially tagged reaction mixture detected intact phosphopeptides and their mercaptoethanol-tagged derivatives simultaneously by their mass difference (-20 Da for each phosphorylation site). The number of new peaks appearing with the mass shift gave the number of multiply phosphorylated sites in a phosphopeptide. Therefore, this partial chemical tagging/dynamic mass analysis method can be a powerful tool for rapid and efficient phosphopeptide identification and analysis of the phosphorylation state concurrently using only MS analysis data.     

In situ disorder-order transformation in synthetic gallosilicate zeolites with the NAT topology

Here, we report that synthetic gallosilicate molecular sieves with the NAT topology and Si/Ga ratios close to but slightly higher than 1.50 undergo an in situ transformation under their crystallization conditions. The materials have been studied ex situ by using powder X-ray diffraction, elemental and thermal analyses, and multinuclear MAS NMR. The transformation is characterized by a change in the distribution of Si and Ga of the NAT framework, from a quite (but not completely) disordered phase to a very highly (but not completely) ordered one, accompanied by a change from tetragonal to orthorhombic symmetry. During most of the solution-mediated transformation, no noticeable signs of fresh precipitation, phase segregation, or changes in the chemical composition are detected. Intermediate materials show variations in the degree of Si-Ga ordering and orthorhombic distortion and are not physical mixtures of the disordered and ordered phases. Ab initio calculations strongly suggest a preferential siting of Si in the tetrahedral sites involved in a smaller number of 4-rings in the NAT topology (i.e., the low multiplicity site). The cost of violations of Loewenstein's rule has also been calculated. For this topology and chemical composition the preferential siting and Loewenstein's rule drive together the system to the ordered configuration. A Monte Carlo sampling procedure affords a reasonable model for the initial, mainly disordered state, which fits well within the experimental disorder-order series.     

Novel supramolecular isomerism in coordination polymer synthesis from unsymmetrical bridging ligands: solvent influence on the ligand placement orientation and final network structure

The assembly of Co(NCS)(2) with 1-methyl-1'-(3-pyridyl)-2-(4-pyridyl)ethene (L(1)) exhibits a novel supramolecular isomerism of [Co(L(1))(2)(NCS)(2)](infinity) caused by different placement orientation of L(1) around metal centers. The reaction in MeOH/H(2)O and EtOH/H(2)O resulted in a double chain structure of 1, and that in EtOH/CH(3)NO(2) led to an open framework structure of 2. The reaction in MeOH/CH(3)NO(2) solvent system concomitantly afforded 1 and 2. The assemblies of 1-(3-pyridyl)-2-(4-pyrimidyl)ethene (L(2)) with Co(NCS)(2) created the water-coordinated complexes of Co(L(2))(2)(H(2)O)(2)(NCS)(2) (3 and 4), an MeOH coordinated complex of Co(L(2))(2)(H(2)O)(2)(NCS)(2) (5), and an open framework coordination polymer of [Co(L(1))(2)(NCS)(2)](infinity) (6) depending on the reaction solvent system. From these observations, it is suggested that in the formation of 1, the solvent-coordinated intermediate species would be generated first and its trans coordination configuration should define the placement orientation of L(1) in the resulting polymer of 1. On the other hand, it is presumed that the solvent-coordinated intermediate would not be produced during the formation of 2 due to the weaker coordination ability of EtOH and CH(3)NO(2) molecules. The open framework coordination polymers of 2 and 6 are converted in the solid state into the isomeric coordination polymer of 1 and hydrogen bonded network structure of 3, respectively.     

Reactivity of amido ligands on a dinuclear Ru(II) center: formation of imido complexes and C-N coupling reaction with alkyne

Treatment of a dinuclear Ru(II) amido complex [Cp*Ru(mu2-NHPh)]2 (Cp* = eta5-C5Me5) with small organic substrates including CO, tert-butyl isocyanide, a sulfur ylide Ph2S=CH2, and diphenylacetylene resulted in an unexpected disproportionation reaction of the bridging amido ligands to produce a free amine and a series of imido-bridged diruthenium complexes [(Cp*Ru)2(mu2-L)(mu2-NPh)] (L = CO, t-BuNC, CH2). In the case of diphenylacetylene, the bridging imido ligand underwent subsequent coupling reaction with the coordinated alkyne to form an iminoalkenyl complex [(Cp*Ru)2(mu2-PhNCPhCPh)].     

Mesocellular polymer foams with unprecedented uniform large mesopores and high surface areas

Mesocellular polymer foams with uniform approximately 17 nm cellular pores were fabricated using mesocellular silica foams as inorganic templates. The mesocellular polymer foams have high surface areas up to approximately 600 m(2)g(-1) and pore volumes of 1.6 cm(3)g(-1).     

Directing Polymorphism in the Helical Nanofilament Phase

Herein, it is reported that the polymorphism in the helical nanofilament (HNF, B₄) liquid-crystalline phase depends on the fabrication methods, that is, UV-driven formation and template-assisted self-assembly in the nanoconfined geometry. As a result, uniaxially oriented HNFs with different helical structures were obtained, in which generation of the twisted-ribbon and cylindrical-ribbon polymorphs showed that even the molecular lattice has a different orientation. The detailed structures were directly observed by SEM and grazing-incidence X-ray diffraction with synchrotron radiation. The resultant polymorphs could be used in chiro-optical applications due to the capability for fine control of the helical structures.     

Hemoglobin as a Diagnosing Molecule for Biological Effects of Atmospheric-Pressure Plasma

The studies with proteins are necessary to understand the biological effects of atmospheric pressure plasma (APP). Among proteins, those with transient metal ions play key roles in many biological events and they are very sensitive to environmental redox states. Iron-containing hemoglobin (Hb) is investigated in this study, after APP treatments under two environmental gas conditions of pure N₂ and N₂?+?O₂ mixture. Monitoring the intensity change for absorption spectra could lead to a quantitative assessment of the effect of discharge plasma on Hb. Redox states of Hb are classified into five states including O₂-bound Hb (oxy-Hb), deoxy-Hb, met-Hb, NO-bound Hb (NO-Hb), and hemichrome. Chemically generated reactive species and some scavengers are applied to understand the chemical reactions. Our experimental results confirm the complex chemical reactions of APP and suggest the possible use of Hb as a model protein for the visualization of APP biological effects.     

Control of on-off or off-on fluorescent and optical [Cu²⁺] and [Hg²⁺] responses via formal Me/H substitution in fully characterized thienyl "scorpionate"-like BODIPY systems

One 8-phenyl and two 8-mesityl-substituted "scorpionate"-like BODIPY-type species of the formula [3,4,4-tris(5-R-(2-thienyl))-8-(2,4,6-R'-phenyl)-4-bora-3a,4a-diaza-s-indacene (R = H, R' = H, 3a; R, = H, R' = Me, 2a; R, = Me, R' = Me, 2b)] have been synthesized and fully characterized. Importantly, differences in their solution (MeCN) optical Cu(2+) and Hg(2+) probing capacity via SSS-chelation were investigated. Compounds 2a-3a were prepared from the requisite 8-substituted BODIPY complexes. They were characterized first by complete (1)H, (11)B and (13)C NMR spectroscopic assignments (CD(3)Cl or CD(3)C(O)CD(3)); the molecular structures of 2a and 3a were determined by X-ray crystallography. Compounds 2a-3a were studied by UV-vis and fluorescence spectroscopy [Φ(F) = 0.27 ± 0.013 (2a); 0.024 ± 0.0016 (2b); 0.0034 ± 0.00047 (3a)]. Importantly, low [Cu(2+)] with 3a (<3.0 × 10(-5) M) gave rise to an increase of fluorescence intensity (off-on; 6.3-fold), whereas with 2a it decreased (on-off). When [Hg(2+)] (<3.0 × 10(-5) M) was added to 2b, the λ(em,max) value increased (off-on; 3.2-fold), and for 2a, it decreased (on-off). The association constant (K(a)) for Hg(2+)·2a was determined to be 3120 ± 307 M(-1). An approximate stoichiometric 1:1 binding determined by Job plot analysis is in line with successful DFT modeling of SSS-Cu(2+) binding for this system type. (1)H NMR spectroscopy also revealed tentative sets of product complex peaks. These simple differences caused by formal ligand Me-group incorporation are the first for any related fluorophores, to the best of our knowledge.     

Rapid characterization of protein chips using microwave-assisted protein tryptic digestion and MALDI mass spectrometry

We demonstrate that the microwave-assisted protein enzymatic digestion (MAPED) method can be successfully applied to the mass spectrometric characterization of proteins captured on the affinity surfaces of protein chips. The microwave-assisted on-chip tryptic digestion method was developed using a domestic microwave, completing the on-chip proteolysis reaction in minutes, whereas the previous on-chip digestion methods by incubation took hours of incubation time. For the model protein chips, antibody-presenting surfaces were prepared, where anti-α-tubulin1 and antibovine serum albumin (BSA) were immobilized on self-assembled monolayers. The resulting digestion efficiency, displaying sequence coverages of 30 and 14% for α-tubulin1 and BSA, respectively, was comparable to the previous time-consuming incubation studies. It allowed the characterization of immunosensed proteins by MASCOT search using peptide mass fingerprinting. In an example of this method for protein chip applications, BSA naturally involved in fetal bovine serum was unambiguously identified on a model protein chip by imaging mass spectrometry. This work shows that biomass spectrometry techniques can be implemented for surface mass spectrometry and biochip applications. Along with recent advances in imaging mass spectrometry, this technique will provide a new opportunity for high-speed, and thus high-throughput in the future, label-free mass spectrometric assays using protein arrays.