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Abstract: We measured coherent x-ray diffraction (CXD) on zeolite microcrystals in order to gain information on internal density distribution and to learn more about the strain developed during the synthesis and attachment process on the substrate. From the distortion and asymmetry of the diffraction pattern on the (020) Bragg peak, the strain field distribution is estimated. We inverted the diffraction patterns from a less strained crystal to obtain the three-dimensional image of the shape and internal strain fields using the error reduction and hybrid input–output phase retrieval algorithms. We also show a few examples of characteristic distortion modes relevant to CXD of zeolites.
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Mar 2010
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Abstract: There has been great interest recently in peptide amphiphiles and block copolymers containing biomimetic peptide sequences due to applications in bionanotechnology. We investigate the self-assembly of the peptide-PEG amphiphile FFFF-PEG5000 containing the hydrophobic sequence of four phenylalanine residues conjugated to PEG of molar mass 5000. This serves as a simple model peptide amphiphile. At very low concentration, association of hydrophobic aromatic phenylalanine residues occurs, as revealed by circular dichroism and UV/vis fluorescence experiments. A critical aggregation concentration associated with the formation of hydrophobic domains is determined through pyrene fluorescence assays. At higher concentration, defined ?-sheets develop as revealed by FTIR spectroscopy and X-ray diffraction. Transmission electron microscopy reveals self-assembled straight fibril structures. These are much shorter than those observed for amyloid peptides, the finite length may be set by the end cap energy due to the hydrophobicity of phenylalanine. The combination of these techniques points to different aggregation processes depending on concentration. Hydrophobic association into irregular aggregates occurs at low concentration, well-developed ?-sheets only developing at higher concentration. Drying of FFFF-PEG5000 solutions leads to crystallization of PEG, as confirmed by polarized optical microscopy (POM), FTIR and X-ray diffraction (XRD). PEG crystallization does not disrupt local ?-sheet structure (as indicated by FTIR and XRD). However on longer lengthscales the ?-sheet fibrillar structure is perturbed because spherulites from PEG crystallization are observed by POM.
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May 2009
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Abstract: The metal cofactor determines the thermal stability in cupredoxins, but how the redox state of copper modulates their melting points remains unknown. The metal coordination environment is highly conserved in cyanobacterial plastocyanins. However, the oxidised form is more stable than the reduced one in thermophilic Phormidium, but the opposite occurs in mesophilic Synechocystis. We have performed neutral amino-acid substitutions at loops of Phormidium plastocyanin far from the copper site. Notably, mutation P49G/G50P confers a redox-dependent thermal stability similar to that of the mesophilic plastocyanin. Moreover, X-ray absorption spectroscopy reveals that P49G/G50P mutation makes the electron density distribution at the oxidised copper site shift towards that of Synechocystis plastocyanin.
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Jun 2010
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Abstract: Background: Despite the existence of over 50 subtypes and circulating recombinant forms of HIV-1, Subtype C dominates the heterosexual pandemic causing approximately 56% of all infections.Objective: To evaluate whether viral genetic factors may contribute to the observed subtype-C predominance.Methods: Chimeric viruses were generated using V1-V3 envelope fragments from a subtype-A/C dually infected woman with preferential genital replication of subtype C. Viral adaptation, spread and cell fusion ability were evaluated in vitro using peripheral blood mononuclear cells and HeLa-CD4-CCR5 cell lines, sequencing and cloning. Structural modeling was performed using a crystal structure of gp120-CD4-X5. Phylogenetic analysis was done using subtype-A, subtype-B and subtype-C sequences from blood and cervix of 37 infected women and database sequences.Results: We identified two envelope motifs, compact V1-V2 loops and V3-316T, which are found at high frequency throughout subtype-C evolution and affect gp120 interactions with CD4 and CCR5, respectively. When a V1-Delta 5 deletion or V3-A316T was incorporated into subtype A, each increased viral fusion and spread several fold in peripheral blood mononuclear cell and cell lines with low CCR5 expression. Structural modeling suggested the formation of an additional hydrogen bond between V3 and CCR5. Moreover, we found preferential selection of HIV with 316T and/or extremely short V1-V2 loops in cervices of three women infected with subtypes A/C, B or C.Conclusion: As CD(4+)-CCR(5+)-T cells are key targets for genital HIV infection and cervical selection can favor compact V1-V2 loops and 316T, which increase viral infectivity, we propose that these conserved subtype-C motifs may contribute to transmission and spread of this subtype. (C) 2009 Wolters Kluwer Health vertical bar Lippincotl Williams & Wilkins
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Feb 2009
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Abstract: We have examined alkaline sulfidic (0.5–0.003 M Na2S), aqueous solutions of Hg(II)-S complexes (4–370 ppm Hg(II)) by Hg LIII edge EXAFS spectroscopy at 296, 348 and 423 K. Data were collected using the ID26 High Brilliance X-ray Spectroscopy beamline at the ESRF. Analysis of these EXAFS spectra shows Hg coordinated by two S atoms at 2.30 Å; multiple scattering analyses reveal a linear [–S–Hg–S–] arrangement in the solution complex. These results are in agreement with earlier results on more concentrated solutions of these complexes. There is also evidence in the data for polynuclear sulfide complexes at 296 K and 348 K for samples with the lowest sulfide concentrations although this is complicated by multiple scattering effects.
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Aug 2007
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Abstract: Disruption of Golgi alpha-mannosidase II activity can result in type II congenital dyserythropoietic anemia and induce lupus-like autoimmunity in mice. Here, we isolated a mutant human embryonic kidney (HEK) 293T cell line called Lec36, which displays sensitivity to ricin that lies between the parental HEK 293T cells, in which the secreted and membrane-expressed proteins are dominated by complex-type glycosylation, and 293S Lec1 cells, which produce only oligomannose-type N-linked glycans. Stem cell marker 19A was transiently expressed in the HEK 293T Lec36 cells and in parental HEK 293T cells with and without the potent Golgi alpha-mannosidase II inhibitor, swainsonine. Negative ion nano-electrospray ionization mass spectra of the 19A N-linked glycans from HEK 293T Lec36 and swainsonine-treated HEK 293T cells were qualitatively indistinguishable and, as shown by collision-induced dissociation spectra, were dominated by hybrid-type glycosylation. Nucleotide sequencing revealed mutations in each allele of MAN2A1, the gene encoding Golgi alpha-mannosidase II: a point mutation that mapped to the active site was found in one allele, and an in-frame deletion of 12 nucleotides was found in the other allele. Expression of the wild type but not the mutant MAN2A1 alleles in Lec36 cells restored processing of the 19A reporter glycoprotein to complex-type glycosylation. The Lec36 cell line will be useful for expressing therapeutic glycoproteins with hybrid-type glycans and as a sensitive host for detecting mutations in human MAN2A1 causing type II congenital dyserythropoietic anemia.
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Jan 2009
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Abstract: We report on the capillary flow behaviour of thermotropic liquid crystal mixtures containing 4-n-octyl-4?-cyanobiphenyl (8CB) and 4-n-pentyl-4?-cyanobiphenyl (5CB). The liquid crystal mixtures are studied in the Nematic (N) and Smectic (SA) phases at room temperature. Polarised optical microscopy (POM), rheology and simultaneous X-ray diffraction (XRD)/capillary flow experiments are performed to characterise the system.
Polarised optical microscopy reveals a dramatic change in optical texture when the 5CB content is increased from 20 to 30% in the mixtures. X-ray diffraction results show that the system goes through a SA–N phase transition, such that the mixtures are smectic for 10–20% 5CB and nematic for 30–90% 5CB. Smectic mixtures flow with the layers aligned along the flow direction (mesogens perpendicular to flow) while nematic mixtures flow with the mesogens aligned in the flow direction. Simultaneous XRD/shear flow experiments show that the SA–N transition is independent of the flow rate in the range 1–6 ml min?1.
The correlation length of the liquid crystal order decreases with increasing 5CB content. Rheology is used to prove that the correlation length behaviour is related to a reduction in the viscosity of the mixture.
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Apr 2009
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Abstract: By cunningly diffracting X-rays twice from an exploding nanometre-scale sphere, holographic images can be made of a tiny system evolving at lightning speed. The technique could be used to picture atomic dynamics.
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Aug 2007
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Abstract: Reliable analysis of the functionality of metalloproteins demands a highly accurate description of both the redox state and geometry of the metal centre, not only in the isolated metalloprotein but also in the transient complex with its target. Here, we demonstrate that the transient interaction between soluble cytochrome c6 and membrane-embedded photosystem I involves subtle changes in the heme iron, as inferred by X-ray absorption spectroscopy (XAS). A slight shift to lower energies of the absorption edge of Fe2+ in cytochrome c6 is observed upon interaction with photosystem I. This work constitutes a novel application of XAS to the analysis of weak complexes in solution.
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May 2006
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Abstract: Context. Silicate dust grains exist in a wide range of astronomical environments and understanding the effect of these on grain structure is of great interest, particularly the effect of thermal annealing on amorphous silicates as a possible route to the formation of crystalline grains. Although laboratory simulations have largely focussed on IR-spectroscopic measurements, since these relate directly to observational data, laboratory synchrotron techniques such as X-ray absorption spectroscopy (XAS) and X-ray scattering are becoming increasingly routine in the analysis of recovered materials. With the increasing prospect of performing astronomical XAS observations, there is much to be gained from applying these techniques to laboratory analogues.
Aims. Diagnostic markers for medium-range order and the effect of thermal annealing on these in amorphous silicates of differing Mg content are characterised using synchrotron X-ray methods.
Methods. Three synthetic amorphous silicates with high, medium and low Mg:Si ratios were annealed at varying temperatures up to 1300 K. X-ray Absorption Near Edge Structure (XANES) spectra at the Si and Mg K-shell absorption edges and X-ray scattering patterns for low values of the X-ray scattering wavevector were recorded for these along with comparative data for commercially produced amorphous SiO2 and mineral samples of forsterite, enstatite and quartz.
Results. XANES features due to short- and medium-range structure are identified at both Mg and Si edges and a new temperature dependent behaviour observed in the medium-range structure surrounding Mg and Si. Based on changes to the morphological details of the XANES spectra, the medium-range structure changes between an enstatite-like and forsterite-like coordination with increasing temperature and appears to correlate directly with Mg content. Low wavevector X-ray scattering features were also found to be diagnostic of the type of medium-range structural ordering. However, these features depend on whether the relative arrangement of clusters of medium-range structure exhibit semi-periodic ordering over the longer-range, which can vary with annealing.
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Jun 2008
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