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199 citations found for Yamaguchi,

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Acta Cryst. (2008). A64, C269-C270
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In the title compound, [CaCo3(C4H5NO4)3(OH)3O(H2O)5]·2.54H2O, the Co atom is octa­hedrally coordinated by one imino­diacetate (ida) dianion as a facial O,N,O'-tridentate ligand, two [mu]3-OH groups and one [mu]3-O ligand, forming an partial Co3O4 cubane cluster. This unit coordinates to a CaII cation in an O,O',O''-tridentate fashion, generating a distorted CaCo3O4 cubane-type cluster. The Ca-[mu]3-O distances [2.429 (5)-2.572 (6) Å] are much longer than the Co-[mu]3-O bonds [1.895 (5)-1.941 (5) Å]. The CaII cation is also coord­inated by five water mol­ecules with Ca-O distances in the range 2.355 (6)-2.543 (6) Å. There are three additional uncoordinated water mol­ecules in the asymmetric unit, the occupancy of which refined to 0.54 (3). In H2O (or D2O), the title complex hydrolyses to Ca2+aq cations and [Co3(ida)3([mu]2-OH)3([mu]3-O)]2- anions.

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Crystal structures of complexes of type 5 17[beta]-hydroxysteroid dehydrogenase with structurally diverse inhibitors reveal novel scaffolds and conformational changes.

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Acta Cryst. (2014). A70, C1818
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The scintillation counter is a widely-used X-ray detector. It contains a scintillator as a luminescent material that converts X-rays into visible light, which is detected with a sensor. A well-known scintillator in the X-ray region is sodium iodide, NaI, an ionic crystal. Before use, it is important to understand how the detector works. For students, the material name and the chemical formula of the scintillator are not familiar, however. In addition, students cannot watch or touch the key element in the detector, because the scintillator is installed inside the housing. Many jewels emit visible light or change their colors under ultraviolet light irradiation. Under X-ray irradiation, the same jewels exhibit similar responses as well. If popular jewels instead of special ionic crystals were used as scintillators, students might show interest in these materials. We propose that photographs of beautiful, brightly shining gemstones and salts could be used as visual educational materials for students to learn the principles of X-ray detectors. Different gemstones and salts were irradiated by intense white synchrotron X-ray radiation at beamline NE7A1 of the PF-AR synchrotron radiation facility at KEK, Japan. Photographs of fluorescence and phosphorescence from the gemstones, and of color changes due to the irradiation, were taken with a remote controlled digital camera. It should be noted that the experimental setup of this study is an easily understood handmade X-ray detector. We will present photographs of exciting gemstones such as Fluorite from the US, Hackmanite from Afghanistan, Mangano Calcite from China, Ruby from Brazil, Selenite from Canada, and Black Opal from Australia. We also irradiated different kinds of colored Himalayan Rock Salt from India or Pakistan, shown in Fig. 1. We will explain basic concepts of X-ray detectors, such as photon counting, dead time, recording, and quantum efficiency, with these photographs.

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Acta Cryst. (2014). A70, C155
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Langmuir-Blodgett (LB) films containing azobenzene undergo reversible structural change under light irradiation because of trans-to-cis or cis-to-trans transformations of azobenzene molecules. Such films are a candidate for molecular machines. Time resolved measurements of specular X-ray reflectivity (XRR) curves were carried out for polymer specimens of azobenzene-containing polyvinil alcohol (6Az10-PVA) monolayer LB films on quartz substrates during light (365 nm or 436 nm) irradiation (1 mW/cm2). Measurements were performed with a time-resolution of 10 s using an X-ray reflectometer [1, 2], which can simultaneously measure the whole XRR curves with no need to rotate the specimen, detector or monochromator crystal. Profiles of XRR curves changed as a function of the elapsed time after initiation of the light irradiation reflecting the structural change of the film. Despite of a common belief that the photo-induced structural change occurs directly between the initial and final states, we found an evidence of the existence of the intermediate third structure. We also found that the time needed for changes in XRR curves was several times longer than for optical absorption spectroscopy (OAS) spectra reported with the same irradiation power. Details of such changes of XRR curves and structures of the film will be discussed and compared with the changes of OAS spectra. An XRR curve for the intermediate state of the 6Az10-PVA monolayer LB film specimen separated from the XRR curves measured under 365 nm light irradiation is shown in the figure together with curves for the initial and final states of the same specimen.


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Bovine heart cytochrome c oxidase has two azide-binding sites, one at the haem a3 iron and the other hydrogen bonded to the well conserved amino acids Asn422 and Tyr379 of subunit I on the transmembrane surface. Three histidine ligands are clearly observed at CuB in the azide-bound form.

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Absolute calibration of a soft X-ray spectrograph has been performed using a white beam of synchrotron radiation. The calibrated spectrograph was a flat-field grazing-incidence spectrograph with an X-ray CCD detector for X-ray laser research. Absolute sensitivity of the spectrograph system can be obtained from transmitted spectra using filters made of several different materials, each providing an absorption-edge wavelength standard. The absolute sensitivity determined in this work shows nearly the same behaviour with wavelength as that in another calibration experiment using a laser-produced plasma as an X-ray source.

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Acta Cryst. (2008). A64, C269
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Recombinant BchU from C. tepidum has been crystallized. Crystals diffract to 2.27 Å using synchrotron radiation at SPring-8 and belong to space group P6122 or P6522, with unit-cell parameters a = b = 81.5, c = 250.7 Å.

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The Os01T0156300 protein, a plant-specific DUF1110 protein from O. sativa, was expressed, purified and crystallized. An X-ray diffraction data set was collected from a native crystal to 1.84 Å resolution.

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Protein disulfide isomerase (PDI) is known to bind to the thyroid hormone triiodothyronine (T3). Here, the expression, crystallization and preliminary X-ray studies of the b and b' domains of rat PDI in ligand-free and T3-complexed states are reported.

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The structure of the interstitially ordered lattice formed in zirconium-oxygen alloys has been studied with use of single-crystal data obtained by X-ray and neutron diffraction methods. The structure belongs to space group P312 and the lattice parameters a and c are related to a0 and c0 of the host hexagonal metal lattice by a = [square root]3a0 and c = c0. The ordered arrangement of interstitial oxygen atoms is described as a regular stacking of layers parallel to the (00.1) plane with the sequence (AC)B(AC)B... which is of the same type as that of nitrogen atoms in [epsilon]-Fe2N. The occupancy probability of oxygen atoms is high for interstitial sites of the A and B types while it is low for sites of the C type. The host metal lattice is distorted in such a way that spacings of successive (00.2) planes are not the same and a hexagonal network of atoms in these planes is periodically deformed.

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Acta Cryst. (1987). A43, C25
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Acta Cryst. (2008). A64, C291
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The cationic ZnII part of aqua­(1,4,7,10-tetra­aza­cyclo­dodeca­ne)zinc(II) diperchlorate, [Zn(C8H20N4)H2O](ClO4)2, exhibits a slightly distorted square-pyramidal coordination environment with a water mol­ecule in the apical position.

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Iso-2 azurin, which functions as an electron acceptor for methylamine dehydrogenase, has been crystallized using two kinds of precipitants: PEG 4000 and ammonium sulfate. Preliminary data for the crystals obtained are presented in this paper.

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