Redetermination of Fe(2)[BP(3)O(12)].
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ABSTRACT:
SUBMITTER: Li FF
PROVIDER: S-EPMC3007966 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:The crystal structure of katayamalite, ideally KLi3Ca7Ti2(SiO3)12(OH)2 (potassium trilithium hepta-calcium dititanium dodeca-silicate di-hydroxide), was previously reported in triclinic symmetry (C-1), with isotropic displacement parameters for all atoms and without the H-atom position [Kato & Murakami (1985 ?). Mineral. J. 12, 206-217]. The present study redetermines the katayamalite structure with monoclinic symmetry (space group C2/c) based on single-crystal X-ray diffraction data from a sample from the type locality, Iwagi Island, Ehime Prefecture, Japan, with anisotropic displacement parameters for all non-H atoms, and with the H atoms located by difference Fourier analysis. The structure of katayamalite contains a set of six-membered silicate rings inter-connected by sheets of Ca atoms on one side and by an ordered mixture of Li, Ti and K atoms on the other side, forming layers which are stacked normal to (001). From the eight different metal sites, three are located on special positions, viz. one K and one Li atom on twofold rotation axes and one Ca atom on an inversion center. The Raman spectrum of kataymalite shows a band at 3678?cm(-1), similar to that observed for hydroxyl-amphiboles, indicating no or very weak hydrogen bonding.
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Project description:Helicobacter pylori cagA can be classified into mainly two types (East-Asian-type and Western-type cagA) according to the repeat regions located in the 3' region. Recent studies showed that the Western-type cagA in strains from Okinawa, Japan formed a different cluster (J-Western-type cagA subtype). It has also been reported that J-Western-type cagA possesses a 12-bp insertion located in the 5' region of cagA sequence.The prevalence of 12-bp insertion in cagA in Okinawa and the United States (U.S.) was examined by DNA sequencing. The primer pair that can detect the 12-bp insertion only by polymerase chain reaction was then designed. The prevalence of strains with 12-bp insertion was examined in 336 strains isolated from Okinawa by polymerase chain reaction.In case of Western-type cagA/vacA s1m2 strains, the prevalence of 12-bp insertion was significantly higher in strains isolated from Okinawa than that from the U.S. (P?=?0.002). Phylogenetic tree showed that strains with 12-bp insertion formed two individual clusters within J-Western-type cagA subtype; one is from Okinawa and another is from the U.S. The designed primer set showed high sensitivity (100%) and specificity (90.8%) in Okinawa. The 12-bp insertion was found in 23.7%, 14.3%, 4.2%, and 4.0% of strains with duodenal ulcer (DU), gastritis, gastric cancer, and gastric ulcer (GU), respectively (P?<?0.001 for DU vs GU) in Okinawa.Although the mechanisms are unknown, the presence of 12-bp insertion was associated with the presence of DU and might have a suppressive action on GU and gastric cancer.
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Project description:LC-MS/MS data were collected from skin swabs of 11 volunteers over a period of 9 weeks and for one volunteer during one week. Volunteers were asked to follow instructions required over our 9 weeks study: - We provided the same head to toe shampoo to all volunteers, that was used during shower for the first 6 weeks. - Week 1 to week 3: no other beauty products was used. - Week 4 to week 6: we provided 5 selected commercial beauty products that all volunteers applied daily on specific body part (deodorant for armpits, soothing foot powder for feet, sunscreen for face and moisturizer for arm back). - Week 7 to week 9: back to normal routine. - Samples were collected every week, before during and after application of beauty products.
2017-10-04 | MSV000081582 | GNPS
Project description:BackgroundThe WSSV immediate early gene ie1 is highly expressed throughout viral infection cycle and may play a central role in initiating viral replication during infection.ResultsHere, a detailed characterization of the ie1 promoter was performed using deletion and mutation analyses to elucidate the role of the individual promoter motifs. Three results were obtained: 1) the ie1 promoter is a classical eukaryotic promoter that contains the initiator element (Inr) and TATA box responsible for the basal promoter activity; 2) mutation or truncation of a predicted Sp1 site decreased the level of promoter activity by about 3-fold, indicating that the Sp1 site is an important cis-element of the promoter; and 3) truncation of a 12-bp sequence that resides at -78/-67 of the ie1 promoter decreased the level of promoter activity by about 14-fold, indicating that the 12-bp motif is a critical upstream element of the ie1 promoter for binding of a strong transcription factor to drive the ie1 gene expression in the cells. Further, the 12-bp DNA binding protein was purified from the nuclear proteins of Sf9 cells using DNA affinity chromatography, and was identified as a homologue of the prohibitin2 protein (named as Sf-PHB2) using mass spectrometry. Furthermore, the DNA binding activity of Sf-PHB2 was verified using a super shift analysis.ConclusionThese results support that the Sf-PHB2 is a novel transcription factor that drives WSSV ie1 gene expression by binding to the 12-bp DNA element.
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Project description:Methanomicrobium mobile BP strain:BP Genome sequencing and assembly
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Project description:The title compound, Nd(3)Fe(5)O(12) (NdIG), has an iron garnet structure. One of the Fe atoms is coordinated by six O atoms in a slightly distorted octa-hedral geometry and has site symmetry. The other Fe atom is coordinated by four O atoms in a slightly distorted tetra-hedral geometry and has site symmetry. The FeO(6) octa-hedron and FeO(4) tetra-hedron are linked together by corners. The Nd atom is coordinated by eight O atoms in a distorted dodeca-hedral geometry and has 222 site symmetry. The O atoms occupy general positions.
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Project description:The CCD-data based redetermination of the crystal structure of the title compound, magnesium chromate(VI) penta-hydrate, confirms in principle the previous study based on precession film data [Bertrand et al. (1971 ?). C. R. Hebd. Seances Acad. Sci. Serie C, 272, 530-533.], but with all atoms refined with anisotropic displacement parameters and with all H atoms localized. This allowed an unambiguous assignment of the hydrogen-bonding pattern. MgCrO4·5H2O adopts the MgSO4·5H2O structure type. It contains two Mg(2+) sites on special positions with site symmetry -1, one tetra-hedral CrO4 group and five water mol-ecules. Four of them coordinate to the Mg(2+) cation, and one is an uncoordinating lattice water mol-ecule. The octa-hedral environment of the Mg(2+) cation is completed by two axial O atoms of CrO4 tetra-hedra. This arrangement leads to the formation of chains parallel to [011]. Adjacent chains are linked through O-H?O hydrogen bonds (one of them bifurcated), involving both the coordi-nating and lattice water mol-ecules, into a three-dimensional network.
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Project description:The structure of the title compound {systematic name: 4-[4-(4-chloro-phen-yl)-4-hy-droxy-piperidin-1-yl]-N,N-dimethyl-2,2-di-phenyl-butanamide monohydrate}, C(29)H(33)ClN(2)O(2)·H(2)O, has been redetermined at 170?(2)?K. The redetermination is of significantly higher precision than the previous structure determination at room temperature and includes the H-atom coordinates that were not included in the previous report [Germain et al. (1977 ?). Acta Cryst. B33, 942-944]. It consists of a piperidin-1-yl ring in a distorted chair conformation, with the N,N-dimethyl-?,?-diphenyl-butyramide and the 4-chloro-phenyl and hy-droxy groups bonded in para positions and an external water mol-ecule within the asymmetric unit. The dihedral angles between the mean plane of the piperidine ring and the 4-chloro-phenyl and two benzene rings are 83.4?(5), 76.4?(2) and 85.9?(2)°, respectively. The two benzene rings are inclined to one another by 50.8?(6)°. In the crystal, mol-ecules are linked by O-H?O and O-H?N hydrogen bonds and weak C-H?O intermolecular interactions, forming an infinite two-dimensional network along [110].
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Project description:Single crystals of europium(III) scandate(III), with ideal formula EuScO(3), were grown from the melt using the micro-pulling-down method. The title compound crystallizes in an ortho-rhom-bic distorted perovskite-type structure, where Eu occupies the eightfold coordinated A sites (site symmetry m) and Sc resides on the centres of corner-sharing [ScO(6)] octa-hedra (B sites with site symmetry ). The structure of EuScO(3) has been reported previously based on powder diffraction data [Liferovich & Mitchell (2004). J. Solid State Chem.177, 2188-2197]. The results of the current redetermination based on single-crystal diffraction data shows an improvement in the precision of the structral and geometric parameters and reveals a defect-type structure. Site-occupancy refinements indicate an Eu deficiency on the A site coupled with O defects on one of the two O-atom positions. The crystallochemical formula of the investigated sample may thus be written as (A)(?(0.032)Eu(0.968))(B)ScO(2.952).
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Project description:Single crystals of silver(I) polyphosphate(V), AgPO(3), were prepared via a phospho-ric acid melt method using a solution of Ag(3)PO(4) in H(3)PO(4). In comparison with the previous study based on single-crystal Weissenberg photographs [Jost (1961 ▶). Acta Cryst. 14, 779-784], the results were mainly confirmed, but with much higher precision and with all displacement parameters refined anisotropically. The structure is built up from two types of distorted edge- and corner-sharing [AgO(5)] polyhedra, giving rise to multidirectional ribbons, and from two types of PO(4) tetra-hedra linked into meandering chains (PO(3))(n) spreading parallel to the b axis with a repeat unit of four tetra-hedra. The calculated bond-valence sum value of one of the two Ag(I) ions indicates a significant strain of the structure.
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