中国物理B ›› 2003, Vol. 12 ›› Issue (3): 310-314.doi: 10.1088/1009-1963/12/3/311

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Solving a superstructure from two-wavelength x-ray powder diffraction data - a simulation

陈建荣, 古元新, 范海福   

  1. Institute of Physics, Chinese Academy of Science, Beijing 100080, China
  • 收稿日期:2002-02-02 修回日期:2002-08-09 出版日期:2003-03-16 发布日期:2005-03-16
  • 基金资助:
    Project supported by the National Natural Science Foundation of China (Grant No 19974068).

Solving a superstructure from two-wavelength x-ray powder diffraction data - a simulation

Chen Jian-Rong (陈建荣), Gu Yuan-Xin (古元新), Fan Hai-Fu (范海福)   

  1. Institute of Physics, Chinese Academy of Science, Beijing 100080, China
  • Received:2002-02-02 Revised:2002-08-09 Online:2003-03-16 Published:2005-03-16
  • Supported by:
    Project supported by the National Natural Science Foundation of China (Grant No 19974068).

摘要: Two different kinds of phase ambiguities are intrinsic in two-wavelength x-ray powder diffraction from acentric crystal structures having pseudo-translation symmetry. In a test calculation we have solved the problem for the first time by two different phasing procedures developed originally in single-crystal structure analysis. They are the direct method of breaking enantiomorphous phase ambiguity in protein crystallography and that of breaking translational phase ambiguity for superstructures. An artificial structure was used in the test, which is based on atomic coordinates of the known structure, SHAS (C_5H_6O_5N_3K), with the atom K replaced by Rb. The arrangement of Rb atoms possesses a subperiodicity of t=(a+b+c)/2. Two-wavelength synchrotron x-ray powder diffraction data were simulated with λ_1=0.0816nm and λ_2=0.1319nm. Overlapped reflections were uniformly decomposed at the beginning and redecomposed afterward when the partial-structure information became available. The enantiomorphous phase ambiguity was resolved only for reflections with h+k+l even. Phases of reflections with h+k+l odd were derived by the direct method of solving superstructures. A fragment was then obtained, which led to the complete structure in five cycles of Fourier iteration.

Abstract: Two different kinds of phase ambiguities are intrinsic in two-wavelength x-ray powder diffraction from acentric crystal structures having pseudo-translation symmetry. In a test calculation we have solved the problem for the first time by two different phasing procedures developed originally in single-crystal structure analysis. They are the direct method of breaking enantiomorphous phase ambiguity in protein crystallography and that of breaking translational phase ambiguity for superstructures. An artificial structure was used in the test, which is based on atomic coordinates of the known structure, SHAS (C$_5$H$_6$O$_5$N$_3$K), with the atom K replaced by Rb. The arrangement of Rb atoms possesses a subperiodicity of $t=(a+b+c)/2$. Two-wavelength synchrotron x-ray powder diffraction data were simulated with $\lambda_1=0.0816$nm and $\lambda_2=0.1319$nm. Overlapped reflections were uniformly decomposed at the beginning and redecomposed afterward when the partial-structure information became available. The enantiomorphous phase ambiguity was resolved only for reflections with $h+k+l$ even. Phases of reflections with $h+k+l$ odd were derived by the direct method of solving superstructures. A fragment was then obtained, which led to the complete structure in five cycles of Fourier iteration.

Key words: two-wavelength powder diffraction, superstructures, direct methods

中图分类号:  (Theory of crystal structure, crystal symmetry; calculations and modeling)

  • 61.50.Ah
61.66.Hq (Organic compounds)