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Masahiro Yamanaka

Publications and source records attributed to Masahiro Yamanaka.

At least 19 recordsLinked to original sources
PubMed2006

Experimental and theoretical evaluation of the charge distribution over the ruthenium and dioxolene framework of [Ru(OAc)(dioxolene)(terpy)] (terpy = 2,2':6',2' '-terpyridine) depending on the substituents.

A series of ruthenium complexes [Ru(OAc)(dioxolene)(terpy)] having various substituents on the dioxolene ligand (dioxolene = 3,5-t-Bu2C6H2O2 (1), 4-t-BuC6H3O2 (2), 4-ClC6H3O2 (3), 3,5-Cl2C6H2O2 (4), Cl4C6O2 (5); terpy = 2,2':6'2' '-terpyridine) were prepared. EPR spectra of these complexes in glassy frozen solutions (CH2Cl2:MeOH = 95:5, v/v) at 20 K showed anisotropic signals with g tensor components 2.242 > g1 > 2.104, 2.097 > g2 > 2.042, and 1.951 > g3 > 1.846. An anisotropic value, Deltag = g1 - g3, and an isotropic g value, g = [(g1(2) + g2(2) + g3(2))/3]1/2, increase in the order 1 < 2 < 3 < 4 < 5. The resonance between the Ru(II)(sq) (sq = semiquinone) and Ru(III)(cat) (cat = catecholato) frameworks shifts to the latter with an increase of the number of electron-withdrawing substituents on the dioxolene ligand. DFT calculations of 1, 2, 3, and 5 also support the increase of the Ru spin density (Ru(III) character) with an increase of the number of Cl atoms on the dioxolene ligand. The singly occupied molecular orbitals (SOMOs) of 1 and 5 are very similar to each other and stretch out the Ru-dioxolene frameworks, whereas the lowest unoccupied molecular orbital (LUMO) of 5 is localized on Ru and two oxygen atoms of dioxolene in comparison with that of 1. Electron-withdrawing groups decrease the energy levels of both the SOMO and LUMO. In other words, an increase in the number of Cl atoms in the dioxolene ligand results in an increase of the positive charge on Ru. Successive shifts in the electronic structure between the Ru(II)(sq) and Ru(III)(cat) frameworks caused by the variation of the substituents are compatible with the experimental data.

Journal Article↗
PubMed2006

Sharing orbitals: ultrafast excited state deactivations with different outcomes in bucky ferrocenes and ruthenocenes.

We report on the singlet ground and singlet/triplet excited-state features of a series of bucky ferrocenes, bucky ruthenocenes, and respective reference compounds. In the bucky ferrocene conjugates, intimate contacts between the fullerenes and ferrocenes result in appreciable ground-state interactions-suggesting a substantial shift of charge density from the electron donor (i.e., ferrocene) to the electron acceptor (i.e., fullerene). In contrast, no prominent charge-transfer features were observed for the bucky ruthenocene conjugates. An arsenal of experimental techniques, ranging from fluorescence (i.e., steady state and time-resolved) and pump probe experiments (i.e., femtosecond and nanoseconds) to pulse radiolysis, were employed to examine excited-state interactions. In the excited states, bucky ferrocene conjugates are dominated by rapid charge separation reactions (0.8 +/- 0.1 ps) to yield metastable radical ion pairs. The radical ion pair lifetimes vary between 27 and 39 ps. No charge separation was, however, found in the corresponding bucky ruthenocence. Instead, an intrinsically faster excited-state deactivation (approximately 200 ps) evolves from the heavier ruthenium center-relative to iron. This effect is further augmented by the unfavorably shifted oxidation potential in ruthenocene of about 0.61 V, which in ruthenocene (-deltaG(ET) = -0.26 eV), in contrast to ferrocene (-deltaG(ET) = 0.35 eV), renders charge separation thermodynamically unfeasible.

Journal Article↗
PubMed2006

Discovery of Siglec-14, a novel sialic acid receptor undergoing concerted evolution with Siglec-5 in primates.

Immune receptors that show high mutual sequence similarity and have antagonizing signaling properties are called paired receptors, and are believed to fine-tune immune responses. Siglecs are sialic acid-recognizing receptors of the immunoglobulin (Ig) superfamily expressed on immune cells. Human Siglec-5, encoded by SIGLEC5 gene, has four extracellular Ig-like domains and a cytosolic inhibitory motif. We discovered human Siglec-14 with three Ig-like domains, encoded by the SIGLEC14 gene, adjacent to SIGLEC5. Human Siglec-14 has almost complete sequence identity with human Siglec-5 at the first two Ig-like domains, shows a glycan binding preference similar to that of human Siglec-5, and associates with the activating adapter protein DAP12. Thus, Siglec-14 and Siglec-5 appear to be the first glycan binding paired receptors. Near-complete sequence identity of the amino-terminal part of human Siglec-14 and Siglec-5 indicates partial gene conversion between SIGLEC14 and SIGLEC5. Remarkably, SIGLEC14 and SIGLEC5 in other primates also show evidence of gene conversions within each lineage. Evidently, balancing the interactions between Siglec-14, Siglec-5 and their common ligand(s) had selective advantage during the course of evolution. The "essential arginine" critical for sialic acid recognition in both Siglec-14 and Siglec-5 is present in humans but mutated in almost all great ape alleles.

Adaptor Proteins, Signal Transducing↗
PubMed2005

A multifunctional shuttling protein nucleolin is a macrophage receptor for apoptotic cells.

Early apoptotic Jurkat T cells undergo capping of CD43, and its polylactosaminyl saccharide chains serve as ligands for phagocytosis by macrophages. This suggests the presence of a polylactosaminoglycan-binding receptor on macrophages. Here we show that this receptor is nucleolin, a multifunctional shuttling protein present in nucleus, cytoplasm, and on the surface of some types of cells. Nucleolin was detected at the surface of macrophages, and anti-nucleolin antibody inhibited the binding of the early apoptotic cells to macrophages. Nucleolin-transfected HEK293 cells expressed nucleolin on the cell surface and bound the early apoptotic cells but not phosphatidylserine-exposing late apoptotic cells. This binding was inhibited by anti-nucleolin antibody, by polylactosamine-containing oligosaccharides, and by anti-CD43 antibody. Deletion of the antibody binding region of nucleolin resulted in loss of the apoptotic cell-binding ability. Moreover, truncated recombinant nucleolin in solution containing this region blocked the apoptotic cell binding to macrophages, and the blocking effect was cancelled by the oligosaccharides. These results indicate that nucleolin is a macrophage receptor for apoptotic cells.

Amino Acid Sequence↗
PubMed2005

Thermodynamic and kinetic control in selective ligand transfer in conjugate addition of mixed organocuprate Me(X)CuLi.

Since the proposal of the dummy ligand concept by Corey, it has been widely accepted that the ligand transfer selectivity of a mixed organocuprate (Me(X)CuLi) depends on the Cu-X bond strength. The present B3LYP density functional studies on the Me(2)(X)Cu(III).OMe(2), pi-allyl Cu(III), and Me(X)Cu(III)LiCl.LiCl reacting with acrolein showed that the ligand transfer selectivity of the conjugate addition depends on two factors, thermodynamic stability (X = tert-butyl, ethynyl, cyano, and thiomethyl groups) and kinetic reactivity ((trimethylsilyl)methyl and vinyl groups) of the Cu(III) intermediate formed by complexation of the cuprate and the alpha,beta-unsaturated carbonyl compound. For the typical dummy ligands (X = alkynyl, cyano, and heteroatom ligands), the trans effect and the strong Li-X affinity are the reasons why these ligands stay on the copper atom. In contrast, for the (trimethylsilyl)methyl and vinyl groups, the selectivity depends on the kinetics of reductive elimination of the Cu(III) intermediate. The (trimethylsilyl)methyl transfer is retarded by repulsive four-electron interaction between the lone pair Cu 3d(xy)() orbital and the C-Si sigma-orbital.

Journal Article↗
PubMed2005

Carbohydrate chains and phosphatidylserine successively work as signals for apoptotic cell removal.

At an early stage of apoptosis, Jurkat cells transiently become susceptible to binding and phagocytosis by macrophages through the polylactosamine-type carbohydrate chains of CD43 [J. Biol. Chem. 279 (2004) 5967]. Susceptibility of apoptotic Jurkat cells to macrophage recognition was studied over an extended time range of 0-24 h including a later stage. Jurkat cells incubated with appropriate concentrations of apoptosis-inducing agents etoposide or anti-Fas antibody became susceptible to macrophage-binding at 2 h, and the susceptibility fell to the control level at 4 or 6 h. However, it increased again at later hours (6-24 h). Flow cytometric analyses of CD43 and phosphatidylserine (PS) on the apoptotic cells indicated that CD43 began to degrade at around 4 h, and PS is externalized significantly at 4 or 6 h. The macrophage-binding at 2 h was prevented by glycosidase treatment of Jurkat cells, but not by annexin V. Conversely, the later binding at 12 or 18 h was not prevented by glycosidase treatment, but was done so by annexin V. These results suggest that Jurkat cells become susceptible to phagocytic removal at an early stage of apoptosis by the carbohydrate-mediated mechanism, and at a later stage by the PS-mediated mechanism.

Antibodies, Monoclonal↗
PubMed2005

Reactivity and stability of organocopper(I), silver(I), and gold(I) ate compounds and their trivalent derivatives.

Organocuprate (R(2)Cu(-)) reagents react with a carbon electrophile to form a new C-C bond, yet their silver and gold counterparts seldom serve for such purposes. The origin of this striking difference is discussed with the aid of the quantum mechanical calculations using hybrid density functional method. The copper reaction takes place through two steps, the nucleophilic reaction of the ate complex R(2)Cu(I)(-) with an electrophile E(+) and the decomposition of the resulting R(2)(E)Cu(III) intermediate. These two steps were examined for Cu, Ag, and Au to find the reasons for the superiority of organocopper compounds to the silver and the gold counterparts. The first reaction is favored because of the higher-lying d-orbitals that directly participate in the nucleophilic reaction. The second reaction is faster with copper because of the intrinsic instability of the high valent copper species.

Journal Article↗
PubMed2004

Mechanism and regioselectivity of reductive elimination of pi-allylcopper (III) intermediates.

Reductive elimination of a pi-allylcopper(III) compound leading to the formation of a C-C bond on an allylic terminal has been considered to occur via the corresponding sigma-allylcopper(III) species. The present B3LYP density functional study has shown however that the C-C bond formation occurs directly from the pi-allyl complex via an enyl[sigma+pi]-type transition state, which has structural features different from a simple sigma-allylcopper(III) intermediate. In the case of unsymmetrically substituted pi-allylcopper(III) compound that has a partial sigma-allylcopper(III) structure, the reductive elimination occurs preferentially at the sigma-bonded allylic terminal since, in this way, the copper atom can recover most effectively its d-electrons shared with the allyl system. The regioselectivity of the reductive elimination of a substituted pi-allylcopper(III) intermediate is mainly controlled by the electronic effect, and correlated well to the Hammett sigma(p)(+) constant. The analyses revealed mechanistic kinship between the allylic substitution and the conjugate addition reaction of organocopper reagents.

Journal Article↗
PubMed2003

Complete reversal in regioselectivity in the Baeyer-Villiger reaction of an alpha-CF(3)-ketone and theoretical rationale for axial orientation of sterically demanding CF(3) group at the transition state.

The regioselectivity of the Baeyer-Villiger reaction of alpha-CF(3)-ketone is completely reversed from that in alpha-F(eq)-ketone. Theoretical study rationalized that the reaction proceeds with the sterically demanding CF(3) group in an axial orientation by strong dipole interaction. The guiding principle that strong dipole interaction can overcome steric repulsion as a determining factor not only in regio- but also in stereocontrol is proposed. [reaction: see text]

Journal Article↗
PubMed2003

Dipole interaction-controlled stereoselectivity in aldol reaction of alpha-CF3 enolate with fluoral.

The stereoselectivity of a reaction is generally determined by minimizing steric repulsion. However, the aldol reaction of alpha-CF(3)-ketone (Z)-enolate with fluoral anomalously gave an anti-aldol through a sterically demanding transition state, because of the strong dipole interaction of the two CF(3) groups. We have thus disclosed a paradigm shift from steric to electronic control of reaction stereoselectivity. [reaction: see text]

Journal Article↗
PubMed2003

Carbohydrate-mediated phagocytic recognition of early apoptotic cells undergoing transient capping of CD43 glycoprotein.

A novel mechanism of phagocytic recognition of apoptotic cells was found and characterized. Jurkat cells incubated with appropriate concentrations of etoposide or anti-Fas antibody transiently became susceptible to binding and phagocytosis by THP-1 cell-derived macrophages at 2 h. The bound Jurkat cells showed no chromatin condensation, but the binding was prevented by a caspase inhibitor, indicating that they were recognized at an early stage of apoptosis. The ligands recognized on the apoptotic cells were sialylpolylactosaminyl sugar chains because 1) the binding was inhibited by an oligosaccharide preparation of erythrocyte membrane, and its inhibitory activity was destroyed by polylactosaminoglycan-specific endo-beta-galactosidase or neuraminidase; 2) Jurkat cells pretreated with endo-beta-galactosidase or neuraminidase failed to be recognized; and 3) treatment of the apoptotic cells with polylactosaminoglycan-binding Datura stramonium agglutinin prevented recognition. The sialylpolylactosaminyl chains involved were most likely those of a major sialoglycoprotein CD43 because anti-CD43 antibody inhibited recognition. CD43 on apoptotic Jurkat cells was found to form a cap at 2 h, and the cap disappeared at 4 h. This transient capping of CD43 coincided with the transient increase in the susceptibility of the cells to macrophage recognition, suggesting that CD43 capping is responsible for generation of the carbohydrate ligands for recognition. Furthermore, microscopic observation suggested that the apoptotic cells were recognized at the CD43 cap. Taken together, we conclude that apoptotic Jurkat cells transiently undergo CD43 capping at an early stage of apoptosis and are recognized by macrophages through the cluster of sialylpolylactosaminyl chains of the capped CD43.

Antigens, CD↗
PubMed2003

(2,5)-Ene cyclization catalyzed by mesoporous solid acids: isotope labeling study and ab initio calculation for continuum from concerted to stepwise ene mechanism.

(2,5)-Ene reactions catalyzed by mesoporous solid acids are reported from the mechanistic point of view. The continuum (2,5)-ene mechanism from the concerted to the cationic cyclization followed by 1,2-hydride shift is evaluated. The solid-acid-catalyzed cyclization of the oxonium ion intermediate 4 derived from cyclic allylic lactol ether 3 bearing allylic hydroxy group affords the (2,5)-ene product as the enol form, eventually tautomerizing to the corresponding aldehyde 6. The continuum from the concerted to stepwise mechanism is experimentally and theoretically verified in the present ene cyclization of the oxonium ion intermediate such as 4. The stepwise cyclization leading to aldehyde 6 is thus shown to associate with the concerted version as a result of the stabilization of the beta-hydroxycarbenium ion intermediate.

Journal Article↗
PubMed2003

Theoretical studies on structures and reactivities of organocuprate(I) and organocopper(III) species.

Systematic evaluation of method and basis set on the structure and energetics of organocuprate(I) and organocopper(III) species has been carried out. Various structures of organocuprate(I) and organocuprate(III) complexes were optimized with the HF, MP2, and B3LYP methods, and compared with the structures determined by X-ray crystallography (i.e., Me(2)Cu(I)(-), (CF(3))(4)Cu(III)(-)). Both the MP2 and B3LYP methods reasonably reproduce the X-ray structures while the HF method does not. Using larger basis set and incorporating the relativistic effects for Cu afford the best results. In the studies on the energetics of a Libond;Cu cluster model (Me(2)CuLi. LiCl) and Me(3)Cu model with the MP2, MP3, MP4DQ, MP4SDQ, CCSD(T), and B3LYP methods, the B3LYP method gives energetics similar to those obtained with the CCSD(T) method with much less cost, and hence, is judged to be the best practical method. The studies have shown that B3LYP method with the basis set incorporating the relativistic effective core potentials for Cu and the 6-31G* basis set for the rest is the theoretical method that is the most cost-effective for the studies of the structure and energetics of organocuprate(I) and organocopper(III) species.

Journal Article↗
PubMed2002

Hybrid of ferrocene and fullerene.

"Bucky ferrocenes", molecular hybrids of ferrocene and fullerene, have been synthesized in good yield on gram scale by treatment of C(60)HMe(5) or C(70)HMe(3) with [FeCp(CO)(2)](2) and their structures studied with physical methods including X-ray crystallography.

Journal Article↗
PubMed2002

Mechanism of C[bond]H bond activation/C[bond]C bond formation reaction between diazo compound and alkane catalyzed by dirhodium tetracarboxylate.

The B3LYP density functional studies on the dirhodium tetracarboxylate-catalyzed C-H bond activation/C-C bond formation reaction of a diazo compound with an alkane revealed the energetics and the geometry of important intermediates and transition states in the catalytic cycle. The reaction is initiated by complexation between the rhodium catalyst and the diazo compound. Driven by the back-donation from the Rh 4d(xz) orbital to the C[bond]N sigma*-orbital, nitrogen extrusion takes place to afford a rhodium[bond]carbene complex. The carbene carbon of the complex is strongly electrophilic because of its vacant 2p orbital. The C[bond]H activation/C[bond]C formation proceeds in a single step through a three-centered hydride transfer-like transition state with a small activation energy. Only one of the two rhodium atoms works as a carbene binding site throughout the reaction, and the other rhodium atom assists the C[bond]H insertion reaction. The second Rh atom acts as a mobile ligand for the first one to enhance the electrophilicity of the carbene moiety and to facilitate the cleavage of the rhodium[bond]carbon bond. The calculations reproduce experimental data including the activation enthalpy of the nitrogen extrusion, the kinetic isotope effect of the C[bond]H insertion, and the reactivity order of the C[bond]H bond.

Journal Article↗