Duplex dissociation of telomere DNAs induced by molecular crowding

Because of the importance of telomere DNAs, the structures of these DNAs in vivo are currently of great research interest in the medical, pharmaceutical, chemical, and industrial fields. To understand the structure of biomolecules in vivo, their properties studied in vitro are extrapolated to the in vivo condition, while the condition in a living cell is inherently molecularly crowded and a nonideal solution contains various biomolecules. We investigated the effect of molecular crowding, which is one of the most important cellular environmental conditions, on the structure and stability of the telomere and G-rich and C-rich DNAs using circular dichroism (CD) spectra, CD melting curves, and isothermal titration calorimetry (ITC). The CD spectra and CD melting curves of G-rich DNA, C-rich DNA, and the 1:1 mixture of G-rich and C-rich DNAs showed that each G-rich DNA, C-rich DNA, and the 1:1 mixture form the antiparallel G-quadruplex, I-motif, and duplex, respectively, in the noncrowding condition as previously considered. On the contrary, the G-rich and C-rich DNAs individually form the parallel G-quadruplex and I-motif, respectively, in the molecular crowding condition, and the 1:1 mixture folds into the parallel G-quadruplex and I-motif but does not form a duplex. The ITC measurements indicated that the thermodynamic stability (DeltaG degrees (20)) of the duplex formation between the G-rich and C-rich DNAs in the noncrowding condition was -10.2 kcal mol(-)(1), while only a small heat change was observed in the ITC measurements in the molecular crowding condition. These ITC results also demonstrated that the molecular crowding condition prevents any duplex formation between G-rich and C-rich DNAs. These results indicate that a structural polymorphism of the telomere DNAs is induced by molecular crowding in vivo.     

Ethenesulfonamide derivatives, a novel class of orally active endothelin-A receptor antagonists

In the present article we wish to report the discovery of a novel class of ET(A)-selective endothelin (ET) receptor antagonists through the modification of the ET(A)/ET(B) non-selective antagonist, Ro47-0203 (Bosentan, 1). Replacement of the benzenesulfonamide group of 1 with a 2-phenylethenesulfonamide group gave compound 5a and resulted in improvement in ET(A)-selectivity. Optimization of the alkoxy side chain attached to the core pyrimidine ring yielded the 2-fluoroethoxy derivative (5n) with further improvement of ET(A)-selectivity. [IC50=2.1 nM for ET(A) receptor, ET(B)/ET(A) ratio=1200]. After oral administration, compound 5n inhibited the big ET-1 induced pressor response in pithed rats with a DR2 value of 2.6 mg/kg and also exhibited a potent antagonistic activity in conscious rats.     

CO2 laser Stark spectroscopy of the Coriolis-coupled ν2 and ν5 bands of CD3Br

The ν₂ (CD₃ symmetrical deformation) and ν₅ (CD₃ degenerate deformation) fundamental bands of CD₃Br were studied by 9.4- and 10.4-μm CO₂ laser Stark spectroscopy. Stark resonances originating from 28 and 53 rovibrational transitions of the ν₂ and ν₅ bands, respectively, were assigned for each of the isotopic species, CD₃⁷⁹Br and CD₃⁸¹Br. These two bands were simultaneously analyzed with explicit inclusion of the ν₂-ν₅ Coriolis interaction, yielding precise molecular constants in the ν₂ and ν₅ excited states as well as the Coriolis coupling constant. The molecular constants obtained are consistent between the two isotopic species and are in good agreement with the results of high-resolution infrared studies. The band origins and dipole moments are

     

84.

Unambiguous Determination of the Absolute Configurations of Acetylene Alcohols by Combination of the Sonogashira Reaction and the CD Exciton Chirality Method – Exciton Coupling between Phenylacetylene and Benzoate Chromophores     

Junpei Naito  Yoko Yamamoto  Megumi Akagi  Satoshi Sekiguchi  Masataka Watanabe  Nobuyuki Harada 《Monatshefte für Chemie / Chemical Monthly》2005,60(1):411-445

The CD exciton chirality method was applied to various phenylacetylene alcohols to determine their absolute configurations; the long axis polarized –^* transition (_max=252nm) of the 4-methoxyphenylacetylene chromophore couples with the transition (_max=257nm) of the 4-methoxybenzoate group to generate intense exciton split CD Cotton effects, from the signs of which the absolute configurations of phenylacetylene alcohols were unambiguously determined. As an extension of the results, a new methodology for determining the absolute configurations of acetylene alcohols having the HCCCH(OH)-moiety by combination of the Sonogashira reaction and the CD exciton chirality method has been developed and applied. Since the –^* transition of acetylene triple bond is located below 180nm, it is difficult to observe ideal bisignate CD Cotton effects due to the exciton coupling between acetylene and benzoate chromophores. To observe the ideal exciton split Cotton effects necessary for the unambiguous determination of absolute configuration, the terminal acetylene group was converted, by the Sonogashira reaction, to the 4-methoxyphenylacetylene moiety, which exhibits an intense –^* absorption band polarized along the long axis of the chromophore at 252nm. As a partner of exciton coupling, 4-methoxybenzoate showing a –^* band at 257nm was introduced into the alcohol moiety, and the benzoates formed showed intense bisignate CD Cotton effects, from the signs of which the absolute configurations of original acetylene alcohols could be determined in an unambiguous manner.     

85.

Silica–Water Reaction Media: Its Application to the Formation and Ring Opening of Aziridines     

Satoshi Minakata Dr.  Daisuke Kano Dr.  Yoji Oderaotoshi Dr.  Mitsuo Komatsu Prof. Dr. 《Angewandte Chemie (Weinheim an der Bergstrasse, Germany)》2004,116(1):81-83

     

86.

Imaging of enzyme activity by scanning electrochemical microscope equipped with a feedback control for substrate-probe distance     

Oyamatsu D  Hirano Y  Kanaya N  Mase Y  Nishizawa M  Matsue T 《Bioelectrochemistry (Amsterdam, Netherlands)》2003,60(1-2):115-121

The enzymatic activity of diaphorase (Dp) immobilized on a solid substrate was characterized using a scanning electrochemical microscope (SECM) with shear force feedback to control the substrate-probe distance. The shear force between the substrate and the probe was monitored with a tuning fork-type quartz crystal and used as the feedback control to set the microelectrode probe close to the substrate surface. The sensitivity and the contrast of the SECM image were improved in the constant distance mode (distance, 50 nm) with the shear force feedback compared to the image in the constant height mode without the feedback. By using this system, the SECM and topographic images of the immobilized diaphorase were simultaneously measured. The microelectrode tip used in this study was ground aslant like a syringe needle in order to obtain the shaper topographic images. This shape was also effective for avoiding the interference during the diffusion of the enzyme substrates.     

87.

Stereospecific polymerization of isobutyl vinyl ether. III. Polymerization with VCl3 • LiCl     

Yasushi Joh  Koichi Harada  Heimei Yuki  Shunsuke Murahashi 《Journal of polymer science. Part A, Polymer chemistry》1971,9(4):1089-1102

The polymerization of isobutyl vinyl ether by vanadium trichloride in n-heptane was studied. VCl₃ ? LiCl was prepared by the reduction of VCl₄ with stoichiometric amounts of BuLi. This type of catalyst induces stereospecific polymerization of isobutyl vinyl ether without the action of trialkyl aluminum to an isotactic polymer when a rise in temperature during the polymerization was depressed by cooling. It is suggested that the cause of the stereospecific polymerization might be due to the catalyst structure in which LiCl coexists with VCl₃, namely, VCl₃ ? LiCl or VCl₂ ? 2LiCl as a solid solution in the crystalline lattice, since VCl₃ prepared by thermal decomposition of VCl₄ and a commercial VCl₃ did not produce the crystalline polymer and soluble catalysts such as VCl₄ in heptane and VCl₃ ? LiCl in ether solution did not yield the stereospecific polymer. It was found that some additives, such as tetrahydrofuran or ethylene glycol diphenyl ether, to the catalyst increased the stereospecific polymerization activity of the catalysts. Influence of the polymerization conditions such as temperature, time, monomer and catalyst concentrations, and the kind of solvent on the formed polymer was also examined.     

88.

Synthesis, structure and thermal stability of fully hydrophobic porphyrin-DNA conjugates     

Takashi Murashima  Kazuyuki Hayata  Jun Matsui  Daisuke Miyoshi  Takashi Yamada  Naoki Sugimoto 《Tetrahedron letters》2007,48(48):8514-8517

The DNAs modified with tetraphenyl porphyrin at the center of 13mer oligonucleotide were synthesized using phosphoramidite chemistry and automated DNA synthesis. When the porphyrin modified oligonucleotide was annealed with its complementary strand, they formed a standard B-form duplex. The porphyrin moiety intercalated in the duplex, and moderately lowered the thermal stability.     

89.

Janus particles with a functional gold surface for control of surface plasmon resonance     

Daisuke Suzuki  Haruma Kawaguchi 《Colloid and polymer science》2006,284(12):1471-1476

We report in this study the presence of Janus particles, which are candidates for use with electronic color papers. We used negatively charged polystyrene particles (370 nm) as the core particles, and gold was then sputtered onto their packed monolayer under several conditions. The sputtered particles were next redispersed into the aqueous medium by gentle sonication. Gold nanoparticles localized on one side of the cores could also serve as seeds for subsequent shell growth by electroless gold plating. Through these treatments, a series of well-dispersed Janus particles were obtained with gold nanostructures of different size and shape only on one side. Their dispersions showed different colors originating from the surface plasmon resonance absorption of gold nanoparticles localized on the hemisphere. The particles obtained by this approach have potential applications such as in sensors and electronic color paper.     

90.

Enantioselective addition of ketene silyl acetals to nitrones catalyzed by chiral titanium complexes. Synthesis of optically active beta-amino acids     

Murahashi S  Imada Y  Kawakami T  Harada K  Yonemushi Y  Tomita N 《Journal of the American Chemical Society》2002,124(12):2888-2889

A chiral titanium complex, Ti(O-i-Pr)(4)/BINOL/tert-butylcatechol, catalyzes enantioselective addition reaction of ketene silyl acetals to nitrones to give optically active beta-amino acid derivatives which are biologically active compounds and useful synthetic intermediates of natural products and pharmaceuticals such as beta-lactam antibiotics. The combined process of catalytic oxidation of secondary amines and enantioselective carbon-carbon bond formation of nitrones thus obtained with ketene silyl acetals provides a useful two-step method for the synthesis of optically active beta-amino acid derivatives and related nitrogen compounds.     

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		CD379Br		CD381Br
$\text{ν}{}_2$		991.396 82 (18)		991.388 46 (17)		cm?1
$\text{ν}{}_5$		1055.469 00 (12)		1055.466 32 (12)		cm?1
$\text{μ}{}_0$		1.830 42 (52)		1.829 84 (47)		D
$\text{μ}{}_2$		1.829 93 (48)		1.829 57 (46)		D
$\text{μ}{}_5$		1.832 23 (60)		1.831 19 (56)		D

Unambiguous Determination of the Absolute Configurations of Acetylene Alcohols by Combination of the Sonogashira Reaction and the CD Exciton Chirality Method – Exciton Coupling between Phenylacetylene and Benzoate Chromophores

The CD exciton chirality method was applied to various phenylacetylene alcohols to determine their absolute configurations; the long axis polarized –^* transition (_max=252nm) of the 4-methoxyphenylacetylene chromophore couples with the transition (_max=257nm) of the 4-methoxybenzoate group to generate intense exciton split CD Cotton effects, from the signs of which the absolute configurations of phenylacetylene alcohols were unambiguously determined. As an extension of the results, a new methodology for determining the absolute configurations of acetylene alcohols having the HCCCH(OH)-moiety by combination of the Sonogashira reaction and the CD exciton chirality method has been developed and applied. Since the –^* transition of acetylene triple bond is located below 180nm, it is difficult to observe ideal bisignate CD Cotton effects due to the exciton coupling between acetylene and benzoate chromophores. To observe the ideal exciton split Cotton effects necessary for the unambiguous determination of absolute configuration, the terminal acetylene group was converted, by the Sonogashira reaction, to the 4-methoxyphenylacetylene moiety, which exhibits an intense –^* absorption band polarized along the long axis of the chromophore at 252nm. As a partner of exciton coupling, 4-methoxybenzoate showing a –^* band at 257nm was introduced into the alcohol moiety, and the benzoates formed showed intense bisignate CD Cotton effects, from the signs of which the absolute configurations of original acetylene alcohols could be determined in an unambiguous manner.     

Imaging of enzyme activity by scanning electrochemical microscope equipped with a feedback control for substrate-probe distance

The enzymatic activity of diaphorase (Dp) immobilized on a solid substrate was characterized using a scanning electrochemical microscope (SECM) with shear force feedback to control the substrate-probe distance. The shear force between the substrate and the probe was monitored with a tuning fork-type quartz crystal and used as the feedback control to set the microelectrode probe close to the substrate surface. The sensitivity and the contrast of the SECM image were improved in the constant distance mode (distance, 50 nm) with the shear force feedback compared to the image in the constant height mode without the feedback. By using this system, the SECM and topographic images of the immobilized diaphorase were simultaneously measured. The microelectrode tip used in this study was ground aslant like a syringe needle in order to obtain the shaper topographic images. This shape was also effective for avoiding the interference during the diffusion of the enzyme substrates.     

Stereospecific polymerization of isobutyl vinyl ether. III. Polymerization with VCl3 • LiCl

The polymerization of isobutyl vinyl ether by vanadium trichloride in n-heptane was studied. VCl₃ ? LiCl was prepared by the reduction of VCl₄ with stoichiometric amounts of BuLi. This type of catalyst induces stereospecific polymerization of isobutyl vinyl ether without the action of trialkyl aluminum to an isotactic polymer when a rise in temperature during the polymerization was depressed by cooling. It is suggested that the cause of the stereospecific polymerization might be due to the catalyst structure in which LiCl coexists with VCl₃, namely, VCl₃ ? LiCl or VCl₂ ? 2LiCl as a solid solution in the crystalline lattice, since VCl₃ prepared by thermal decomposition of VCl₄ and a commercial VCl₃ did not produce the crystalline polymer and soluble catalysts such as VCl₄ in heptane and VCl₃ ? LiCl in ether solution did not yield the stereospecific polymer. It was found that some additives, such as tetrahydrofuran or ethylene glycol diphenyl ether, to the catalyst increased the stereospecific polymerization activity of the catalysts. Influence of the polymerization conditions such as temperature, time, monomer and catalyst concentrations, and the kind of solvent on the formed polymer was also examined.     

Synthesis, structure and thermal stability of fully hydrophobic porphyrin-DNA conjugates

The DNAs modified with tetraphenyl porphyrin at the center of 13mer oligonucleotide were synthesized using phosphoramidite chemistry and automated DNA synthesis. When the porphyrin modified oligonucleotide was annealed with its complementary strand, they formed a standard B-form duplex. The porphyrin moiety intercalated in the duplex, and moderately lowered the thermal stability.     

Janus particles with a functional gold surface for control of surface plasmon resonance

We report in this study the presence of Janus particles, which are candidates for use with electronic color papers. We used negatively charged polystyrene particles (370 nm) as the core particles, and gold was then sputtered onto their packed monolayer under several conditions. The sputtered particles were next redispersed into the aqueous medium by gentle sonication. Gold nanoparticles localized on one side of the cores could also serve as seeds for subsequent shell growth by electroless gold plating. Through these treatments, a series of well-dispersed Janus particles were obtained with gold nanostructures of different size and shape only on one side. Their dispersions showed different colors originating from the surface plasmon resonance absorption of gold nanoparticles localized on the hemisphere. The particles obtained by this approach have potential applications such as in sensors and electronic color paper.     

Enantioselective addition of ketene silyl acetals to nitrones catalyzed by chiral titanium complexes. Synthesis of optically active beta-amino acids

A chiral titanium complex, Ti(O-i-Pr)(4)/BINOL/tert-butylcatechol, catalyzes enantioselective addition reaction of ketene silyl acetals to nitrones to give optically active beta-amino acid derivatives which are biologically active compounds and useful synthetic intermediates of natural products and pharmaceuticals such as beta-lactam antibiotics. The combined process of catalytic oxidation of secondary amines and enantioselective carbon-carbon bond formation of nitrones thus obtained with ketene silyl acetals provides a useful two-step method for the synthesis of optically active beta-amino acid derivatives and related nitrogen compounds.