Phosphoproteome Profiling Using a Fluorescent Phosphosensor Dye in Two-Dimensional Polyacrylamide Gel Electrophoresis

We validated the novel PhosphoQUANTI SolidBlue Complex (PQSC) dye for the sensitive fluorescent detection of phosphorylated proteins in polyacrylamide- and two-dimensional gel electrophoresis (PAGE and 2DE, respectively). PQSC can detect as little as 15.6 ng of ß-casein, a pentaphosphorylated protein, and 61.3 ng of ovalbumin, a diphosphorylated protein. Fluorescence intensity correlates with the number of phosphorylated residues on the protein. To demonstrate the specificity of PQSC for phosphoproteins, enzymatically dephosphorylated lysates of Swiss 3T3 cells were separated in 2DE gels and stained by PQSC. The fluorescence signals in these gels were markedly reduced following dephosphorylation. When the phosphorylated proteins in Swiss 3T3 cell lysates were concentrated using a phosphoprotein enrichment column, the majority of phosphoproteins showed fluorescence signals in the pI 4–5 range. Finally, we performed phosphoproteome analysis to study differences in the protein phosphorylation profiles of proliferating and quiescent Swiss 3T3 cells. Over 135 discernible protein spots were detected, from which a selection of 15 spots were identified by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI TOF-MS). The PQSC staining procedure for phosphoprotein detection is simple, reversible, and fully compatible with MALDI TOF-MS.     

Theoretical study on singlet oxygen adsorption onto surface of graphene-like aromatic hydrocarbon molecules

Recently, graphene sheet is one of interesting systems to realize novel electronic properties. Especially, interaction between graphene and adsorbed oxygen molecule is very important to control electronic condition. In this paper, we employed some aromatic hydrocarbons as simple systems of graphene sheet and ab initio MO calculations were carried out to investigate inter-molecular interaction. It is found that not triplet but singlet O₂ molecule have potential of chemisorption onto graphene surface. From the calculated potential energy surface (PES) for distance between benzene and O₂ molecules, meta-stable structure is found at about 1.5 Å with potential barrier. In the optimized structure of its meta-stable state, structural strain can be relaxed through bending of planer benzene ring. Its energy is estimated at 70.10 kcal/mol for benzene. We also estimated the strain effects for naphthalene and pyrene molecules as larger case of graphene and they were 80.85 and 72.45 kcal/mol, respectively.     

Direct synthesis of fluorescent 1,3a,6a-triazapentalene derivatives via click-cyclization-aromatization cascade reaction

An efficient and versatile method was established for the preparation of 1,3a,6a-triazapentalenes. The 1,3a,6a-triazapentalene skeleton without an additional fused ring system was discovered to be a compact and highly fluorescent chromophore, which exhibited various interesting fluorescent properties such as a noteworthy correlation of luminescent wavelength with the Hammett σ(p) value and a strongly positive solvatofluorochromism.     

Comparative reactivity of ferric-superoxo and ferryl-oxo species in heme and non-heme complexes

Ferryl-oxo species have been recognized as a key oxidant in many heme and non-heme enzymes. Recently, less-characterized ferric-superoxo species have been found or suggested to be another electrophilic oxidant. Reactivity of several vital ferryl-oxo and ferric-superoxo model complexes was examined by DFT calculations. Reactivity is found to correlate well with thermodynamic driving force and can increase with higher electrophilicity of the oxidant. Reactivity of the ferric-superoxo oxidants generally is not "superior" to the ferryl-oxo ones. Compared to the high-spin non-heme ferric-superoxo, the lower reactivity of low-spin heme ferric-superoxo, seldom utilized in nature, can be attributed to lower electrophilicity and more pronounced quenching of anti-ferromagnetic coupling between the ferric and superoxo parts. The present comparison should shed some light on mechanistic strategies in heme and non-heme enzymes and provide clues to rational design of ferric-superoxo oxidants.     

QM/MM study of the structure, energy storage, and origin of the bathochromic shift in vertebrate and invertebrate bathorhodopsins

By comparing the results from a hybrid quantum mechanics/molecular mechanics method (SORCI+Q//B3LYP/6-31G*:Amber) between vertebrate (bovine) and invertebrate (squid) visual pigments, the mechanism of molecular rearrangements, energy storage, and origin of the bathochromic shift accompanying the transformation of rhodopsin to bathorhodopsin have been evaluated. The analysis reveals that, in the presence of an unrelaxed binding site, bathorhodopsin was found to carry almost 27 kcal/mol energy in both visual pigments and absorb (λ(max)) at 528 nm in bovine and 554 nm in squid. However, when the residues within 4.0 ? radius of the retinal are relaxed during the isomerization event, almost ～16 kcal/mol energy is lost in squid compared to only ～8 kcal/mol in bovine. Loss of a larger amount of energy in squid is attributed to the presence of a flexible binding site compared to a rigid binding site in bovine. Structure of the squid bathorhodopsin is characterized by formation of a direct H-bond between the Schiff base and Asn87.     

Molecular states of p-dimethylaminobenzonitrile coground with β-cyclodextrin investigated using solid-state fluorescence spectroscopy

Changes in molecular states of p-dimethylaminobenzonitrile (DMABN) coground with β-cyclodextrin (β-CD) were examined using solid-state fluorescence measurements. Formation of a DMABN/β-CD inclusion complex by coprecipitation was confirmed by powder X-ray diffraction measurement. The powder X-ray diffraction pattern of the ground mixture was a halo pattern and differed from the pattern of the mixture prepared by coprecipitation. Solid-state fluorescence measurements revealed emission by DMABN crystals in a twisted intermolecular charge-transfer state at 473 nm. DMABN in the DMABN/β-CD coprecipitate had a fluorescence emission peak at 393 nm due to its planar structure. In contrast, DMABN in a DMABN/β-CD ground mixture had an emission peak at 473 nm due to its twisted structure. Grinding time-dependent structural changes in DMABN were evaluated using fluorescence lifetime and relative quantum yield measurements. Structural changes in DMABN in the DMABN/β-CD coprecipitate from a planar to a twisted structure were observed with grinding. DMABN, dispersed in microcrystalline cellulose (CC) molecules in a DMABN/CC ground mixture, had a fluorescence emission peak at 473 nm. However, the excitation spectrum of a DMABN/β-CD ground mixture differed from that of DMABN in CC. These results indicated that the molecular state of DMABN accommodated in the β-CD cavity differs between the coprecipitate and the ground mixture.     

Ditantalum dinitrogen complex: reaction of H2 molecule with "end-on-bridged" [Ta(IV)]2(μ-η(1):η(1)-N2) and Bis(μ-nitrido) [Ta(V)]2(μ-N)2 complexes

To elucidate (i) the physicochemical properties of the {(η(5)-C(5)Me(5))[Ta(IV)](i-Pr)C(Me)N(i-Pr)}(2)(μ-η(1):η(1)-N(2)), I, [Ta(IV)](2)(μ-η(1):η(1)-N(2)), and {(η(5)-C(5)Me(5))[Ta(V)](i-Pr)C(Me)N(i-Pr)}(2)(μ-N)(2), II, [Ta(V)](2)(μ-N)(2), complexes; (ii) the mechanism of the I → II isomerization; and (iii) the reaction mechanism of these complexes with an H(2) molecule, we launched density functional (B3LYP) studies of model systems 1, 2, and 3 where the C(5)Me(5) and (i-Pr)C(Me)N(i-Pr) ligands of I (or II) were replaced by C(5)H(5) and HC(NCH(3))(2), respectively. These calculations show that the lower-lying electronic states of 1, [Ta(IV)](2)(μ-η(1):η(1)-N(2)), are nearly degenerate open-shell singlet and triplet states with two unpaired electrons located on the Ta centers. This finding is in reasonable agreement with experiments [J. Am Chem. Soc. 2007, 129, 9284-9285] showing easy accessibility of paramagnetic and diamagnetic states of I. The ground electronic state of the bis(μ-nitrido) complex 2, [Ta(V)](2)(μ-N)(2), is a closed-shell singlet state in agreement with the experimentally reported diamagnetic feature of II. The 1-to-2 rearrangement is a multistep and highly exothermic process. It occurs with a maximum of 28.7 kcal/mol free energy barrier required for the (μ-η(1):η(1)-N(2)) → (μ-η(2):η(2)-N(2)) transformation step. Reaction of 1 with H(2) leading to the 1,4-addition product 3 proceeds with a maximum of 24.2 kcal/mol free energy barrier associated by the (μ-η(1):η(1)-N(2)) → (μ-η(2):η(1)-N(2)) isomerization step. The overall reaction 1 + H(2) → 3 is exothermic by 20.0 kcal/mol. Thus, the addition of H(2) to 1 is kinetically and thermodynamically feasible and proceeds via the rate-determining (μ-η(1):η(1)-N(2)) → (μ-η(2):η(1)-N(2)) isomerization step. The bis(μ-nitrido) complex 2, [Ta(V)](2)(μ-N)(2), does not react with H(2) because of the large energy barrier (49.5 kcal/mol) and high endothermicity of the reaction. This conclusion is also in excellent agreement with the experimental observation [J. Am Chem. Soc. 2007, 129, 9284-9285].     

Diastereo- and enantioselective conjugate addition of α-substituted nitroacetates to maleimides under base-free neutral phase-transfer conditions

Highly diastereo- and enantioselective conjugate addition of α-substituted nitroacetates to maleimides under base-free neutral phase-transfer conditions was developed for the synthesis of α,α-disubstituted α-amino acid derivatives.     

Catalytic asymmetric synthesis of 1,1-disubstituted tetrahydro-β-carbolines by phase-transfer catalyzed alkylations

Efficient catalytic asymmetric synthesis of 1,1-disubstituted tetrahydro-β-carbolines has been achieved via asymmetric alkylation of 1-cyanotetrahydro-β-carbolines using a binaphthyl-modified N-spiro-type chiral phase-transfer catalyst. This is a valuable example of hitherto difficult highly enantioselective alkylations at α-carbon of the cyano group under phase-transfer conditions.     

Surface segregation of poly(2-methoxyethyl acrylate) in a mixture with poly(methyl methacrylate)

Poly(2-methoxyethyl acrylate) (PMEA) exhibits excellent blood compatibility. To understand why such a surface functionality exists, the surface of PMEA should be characterized in detail, structurally and dynamically, under not only ambient conditions, but also in water. However, a thin film of PMEA supported on a solid substrate can be easily broken, namely it is dewetted. Our strategy to overcome this difficulty is to mix PMEA with poly(methyl methacrylate) (PMMA). Differential scanning calorimetry and cloud point measurements revealed that the PMEA/PMMA blend has a phase diagram with a lower critical solution temperature. The blend surface was also characterized by X-ray photoelectron spectroscopy in conjunction with microscopic observations. Although PMEA is preferentially segregated over PMMA at the blend surface due to its lower surface free energy, the extent of segregation in the as-prepared films was not sufficient to cover the surface. Annealing the blend film at an appropriate temperature, higher than the glass transition temperature and lower than the phase-separation temperature of the blend, enabled us to prepare a stable and flat surface that was perfectly covered with PMEA.