Displacement of iron by zinc at the diiron site of Desulfovibrio vulgaris rubrerythrin: X-ray crystal structure and anomalous scattering analysis

2004 ◽  
Vol 98 (5) ◽  
pp. 786-796 ◽  
Author(s):  
Shi Jin ◽  
Donald M. Kurtz ◽  
Zhi-Jie Liu ◽  
John Rose ◽  
Bi-Cheng Wang
1999 ◽  
Vol 14 (2) ◽  
pp. 106-110 ◽  
Author(s):  
Yanan Xiao ◽  
Shinjiro Hayakawa ◽  
Yohichi Gohshi ◽  
Masaharu Oshima ◽  
Fujio Izumi ◽  
...  

In order to exploit X-ray powder spectro-diffractometry, the program RIETAN-97ß for refining crystal structure and lattice parameters by the Rietveld method was modified extensively. The resulting software can be used to refine anomalous scattering factors, fr and fi, for specified crystallographic sites near the X-ray absorption edge of a particular element. The effectiveness of the modified software was tested by using powder diffraction patterns simulated by the original RIETAN-97ß software and a series of measured powder diffraction patterns of Fe3O4 with incident X-ray energies near the absorption edge of iron.


Biochemistry ◽  
2004 ◽  
Vol 43 (11) ◽  
pp. 3204-3213 ◽  
Author(s):  
Shi Jin ◽  
Donald M. Kurtz, ◽  
Zhi-Jie Liu ◽  
John Rose ◽  
Bi-Cheng Wang
Keyword(s):  
X Ray ◽  

1998 ◽  
Vol 258 (2) ◽  
pp. 362-371 ◽  
Author(s):  
Martin A. Walsh ◽  
Andrew McCarthy ◽  
Paul A. O'Farrell ◽  
Patrick McArdle ◽  
P. Desmond Cunningham ◽  
...  

Author(s):  
A. Kirfel ◽  
K. F. Fischer

AbstractPartially or fully ordered distributions of two elements on two crystallographically different positions play an increasingly important role in material and earth sciences. As a consequence of the simple principle ‘what can be studied in reciprocal space (or appropriately selected parts of it), does not deserve Fourier mapping in direct space’, we discuss:1. For determining distributions of elements with similar atomic numbers, a single-wavelength measurement suffices and gives better results than the combination of data measured at two wavelengths providing different anomalous scattering.2. The least-squares technique or other procedures employing carefully selected reflections are superior to electron counting from Fourier maps. In particular, a two-The conclusions are valid under the assumption that the crystal structure is sufficiently well known, except an ‘order parameter’ describing the preference of one of the two elements for one of the two sites.


Author(s):  
Emilie Vassal-Stermann ◽  
Stephanie Hutin ◽  
Pascal Fender ◽  
Wim P. Burmeister

The cryo-electron microscopy (cryo-EM) structure of the complex between the trimeric human adenovirus B serotype 3 fibre knob and human desmoglein 2 fragments containing cadherin domains EC2 and EC3 has been published, showing 3:1 and 3:2 complexes. Here, the crystal structure determined at 4.5 Å resolution is presented with one EC2-EC3 desmoglein fragment bound per fibre knob monomer in the asymmetric unit, leading to an apparent 3:3 stoichiometry. However, in concentrated solution the 3:2 complex is predominant, as shown by small-angle X-ray scattering (SAXS), while cryo-EM at lower concentrations showed a majority of the 3:1 complex. Substitution of the calcium ions bound to the desmoglein domains by terbium ions allowed confirmation of the X-ray model using their anomalous scattering and shows that at least one binding site per cluster of calcium ions is intact and exchangeable and, combined with SAXS data, that the cadherin domains are folded even in the distal part that is invisible in the cryo-EM reconstruction.


Author(s):  
H.-J. Cantow ◽  
H. Hillebrecht ◽  
S. Magonov ◽  
H. W. Rotter ◽  
G. Thiele

From X-ray analysis, the conclusions are drawn from averaged molecular informations. Thus, limitations are caused when analyzing systems whose symmetry is reduced due to interatomic interactions. In contrast, scanning tunneling microscopy (STM) directly images atomic scale surface electron density distribution, with a resolution up to fractions of Angstrom units. The crucial point is the correlation between the electron density distribution and the localization of individual atoms, which is reasonable in many cases. Thus, the use of STM images for crystal structure determination may be permitted. We tried to apply RuCl3 - a layered material with semiconductive properties - for such STM studies. From the X-ray analysis it has been assumed that α-form of this compound crystallizes in the monoclinic space group C2/m (AICI3 type). The chlorine atoms form an almost undistorted cubic closed package while Ru occupies 2/3 of the octahedral holes in every second layer building up a plane hexagon net (graphite net). Idealizing the arrangement of the chlorines a hexagonal symmetry would be expected. X-ray structure determination of isotypic compounds e.g. IrBr3 leads only to averaged positions of the metal atoms as there exist extended stacking faults of the metal layers.


Planta Medica ◽  
2008 ◽  
Vol 74 (03) ◽  
Author(s):  
W Gul ◽  
P Carvalho ◽  
D Slade ◽  
M Avery ◽  
JR Duchek ◽  
...  
Keyword(s):  

Author(s):  
Süheyla Özbey ◽  
F. B. Kaynak ◽  
M. Toğrul ◽  
N. Demirel ◽  
H. Hoşgören

AbstractA new type of inclusion complex, S(–)-1 phenyl ethyl ammonium percholorate complex of R-(–)-2-ethyl - N - benzyl - 4, 7, 10, 13 - tetraoxa -1- azacyclopentadecane, has been prepared and studied by NMR, IR and single crystal X-ray diffraction techniques. The compound crystallizes in space group


2020 ◽  
Author(s):  
Keishiro Yamashita ◽  
Kazuki Komatsu ◽  
Hiroyuki Kagi

An crystal-growth technique for single crystal x-ray structure analysis of high-pressure forms of hydrogen-bonded crystals is proposed. We used alcohol mixture (methanol: ethanol = 4:1 in volumetric ratio), which is a widely used pressure transmitting medium, inhibiting the nucleation and growth of unwanted crystals. In this paper, two kinds of single crystals which have not been obtained using a conventional experimental technique were obtained using this technique: ice VI at 1.99 GPa and MgCl<sub>2</sub>·7H<sub>2</sub>O at 2.50 GPa at room temperature. Here we first report the crystal structure of MgCl2·7H2O. This technique simultaneously meets the requirement of hydrostaticity for high-pressure experiments and has feasibility for further in-situ measurements.


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