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58 citations found for Kubota,

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The Gly-rich loop of cyclin-dependent kinase 2 (CDK2) bound to TEI-I01800 as an MK2 specific inhibitor forms a [beta]-sheet which is a common structure in CDK2-ligand complexes. Here, the reason why TEI-I01800 does not become a strong inhibitor against CDK2 based on the conformation of TEI-I01800 is presented.

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The glycine-rich loop of MK2 (MAPKAP-K2) bound to the non-selective inhibitor TEI-L03090 adopts the [beta]-form, which is commonly found in other kinase complexes; however, it differs from the [alpha]-form which is adopted when MK2 is bound to the MK2-selective inhibitor TEI-I01800. These results show how conformational change of MK2 influences its selectivity.

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Acta Cryst. (2014). A70, C1357
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Vanadium spinel oxides AV2O4 have attracted much attention for recent years because they show the peculiar physical properties which are caused by competition and cooperation of spin, orbital and lattice degrees of freedom. Among such compounds, FeV2O4 is a unique compound showing successive phase transitions: cubic to tetragonal (c < a) at ~140 K, from tetragonal to orthorhombic accompanied by ferrimagnetic transition at ~110 K and from orthorhombic to tetragonal (c > a) at ~70 K with decreasing temperature. It is suggested that these phase transitions originate from the orbital degrees of freedom of both Fe2+ ions at A-site (tetrahedral site) and V3+ ones at B-site (octahedral site), however, the origin remains controversial. In the present study, we investigate the substitution effect of Fe2+ with Co2+ having no orbital degrees of freedom to clarify the role of the orbital degree of Fe2+ at the A-site. We carried out magnetization and specific heat measurements and synchrotron powder diffraction experiments by the Debye-Scherrer camera at the beamline BL-8B at Photon Factory in KEK. For x [less-than or equal to] 0.1, the successive structural transitions similar to that observed in FeV2O4 occur although the transition temperature of cubic-to-tetraLT transition rapidly decreases with increasing x. For 0.2[less-than or equal to] x [less-than or equal to] 0.6, the only structural transition from cubic to tetragonal (c < a) was observed, however, the transition temperatures were somewhat different from the ferrimagnetic transition ones. On the other hand, for x [greater-than or equal to] 0.7, the crystal structure remains cubic down to 10 K similar to that of CoV2O4. These structural properties are discussed in terms of the orbital states of Fe2+ ions obtained by the normal mode analysis, and they are compared with the results of the specific heat and magnetization measurements.

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Acta Cryst. (2008). A64, C583-C584
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The KaiC-like protein PH0187 from the hyperthermophilic archaeon P. horikoshii OT3 was expressed, purified and crystallized using the sitting-drop vapour-diffusion method. The crystal of PH0187 diffracted X-rays to 2.75 Å resolution.

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Acta Cryst. (2014). A70, C1358
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Orbital degrees of freedom plays an important role in condensed matter physics because it is strongly related with phase transitions and induces the fascinating physical properties. A spinel oxide FeV2O4 is one of the peculiar examples because this compound has double orbital degrees of freedom at both Fe2+ and V3+ ions. Furthermore, this material represents exotic physical properties [1,2], i.e.; multiferroic, large magnetostriction, and successive structural transitions with decreasing temperature: cubic - tetragonal (c < a: tetraHT, 138K) - orthorhombic (orthoHT, 108 K) - tetragonal (c > a: tetraLT, 68 K). However, the origin of structural transitions and physical properties is controversial until now. In order to clarify the origin, we have performed synchrotron x-ray diffraction experiments at low temperatures at beamline BL02B2 (for the powder samples) in SPring-8 and BL-4C (for the single crystal) of the Photon Factory, KEK. Furthermore, we have carried out the magnetization and the specific heat measurements using polycrystalline samples and single crystal of FeV2O4. We have firstly found another orthorhombic phase (orthoLT) below 30 K in the polycrystalline sample of FeV2O4, shown in figure 1. The Rietveld analysis was performed, and the overall qualities of fittings were fairly good. In order to investigate the details of the orbital state of Fe2+ and V3+ in FeV2O4, we have performed the normal mode analysis, which is based on static displacements of the tetrahedron of FeO4 and octahedron of VO6. In the orthoLT phase, we found the orbital order of Fe2+ ions, which is mixture of 3z2-r2 and y2-z2 orbitals, without change of orbital order of V3+ ions. This result indicates that the origin of the orthoLT phase is derived from the competition between cooperative Jahn-Teller effect and relativistic spin-orbit coupling of Fe2+ ions. We also discuss the origins of the other phase transitions considering the orbital state of V3+ and Fe2+ ions, and then the orbital dilution effect, where the structural and magnetic properties are investigated by using powder samples substituted for Fe2+ and V3+ ions by other ions (Mn2+ and Fe3+) with no orbital degrees of freedom.

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An in situ high-resolution powder diffraction measurement system synchronized with controlling gas and vapour pressures is presented. This system enables one to perform both automatic in situ and millisecond time-resolved measurements under gas pressures.

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Acta Cryst. (2017). A73, C966
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Crystallization of a sputtered Sb8Te3 film was investigated by powder X-ray diffraction.

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The crystal structures of Sb-Te compounds that are materials currently used for DVDs were investigated by powder X-ray diffraction using synchrotron radiation. Each structure is fundamentally a simple stacking structure, but the stacking period changes regularly with composition and becomes extremely long.

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Maltooligosyl trehalose synthase has been crystallized and preliminary X-ray diffraction data have been obtained. The chemical modification of the enzyme improved crystal quality.

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Acta Cryst. (2011). A67, C791
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NADPH-dependent 5-keto-D-gluconate reductase from G. suboxydans IFO12528 (5KGR) was expressed, purified and crystallized with 5-keto-D-gluconate and NADPH using the sitting-drop vapour-diffusion method. Crystals of the 5KGR-NADPH complex and of the 5KGR-NADPH-5-keto-D-gluconate complex diffracted X-rays to 1.75 and 2.26 Å resolution, respectively.


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NADPH-dependent L-sorbose reductase from G. frateurii (SR) was expressed, purified and crystallized with L-sorbose or NADPH using the sitting-drop vapour-diffusion method. Crystals of the SR-L-sorbose complex and SR-NADPH complex diffracted X-rays to 2.38 and 1.90 Å resolution, respectively.


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