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期刊名称:Acta Crystallographica Section A: Foundations and Advances
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Background optimization of powder electron diffraction for implementation of the e-PDF technique and study of the local structure of iron oxide nanocrystals
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-07-25 , DOI: 10.1107/s2053273323005107
NagaVishnuVardhanMogili,NatháliaCarolinaVerissimo,A.M.MilindaAbeykoon,EmilS.Bozin,JeffersonBettini,EdsonRobertoLeite,JoãoBatistaSouzaJunior
The local structural characterization of iron oxide nanoparticles is explored using a total scattering analysis method known as pair distribution function (PDF) (also known as reduced density function) analysis. The PDF profiles are derived from background-corrected powder electron diffraction patterns (the e-PDF technique). Due to the strong Coulombic interaction between the electron beam and the sample, electron diffraction generally leads to multiple scattering, causing redistribution of intensities towards higher scattering angles and an increased background in the diffraction profile. In addition to this, the electron–specimen interaction gives rise to an undesirable inelastic scattering signal that contributes primarily to the background. The present work demonstrates the efficacy of a pre-treatment of the underlying complex background function, which is a combination of both incoherent multiple and inelastic scatterings that cannot be identical for different electron beam energies. Therefore, two different background subtraction approaches are proposed for the electron diffraction patterns acquired at 80 kV and 300 kV beam energies. From the least-square refinement (small-box modelling), both approaches are found to be very promising, leading to a successful implementation of the e-PDF technique to study the local structure of the considered nanomaterial.
An invertible seven-dimensional Dirichlet cell characterization of lattices
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-06-20 , DOI: 10.1107/s2053273323003121
HerbertJBernstein,LawrenceCAndrews,MarioXerri
Characterization of crystallographic lattices is an important tool in structure solution, crystallographic database searches and clustering of diffraction images in serial crystallography. Characterization of lattices by Niggli-reduced cells (based on the three shortest non-coplanar lattice vectors) or by Delaunay-reduced cells (based on four non-coplanar vectors summing to zero and all meeting at obtuse or right angles) is commonly performed. The Niggli cell derives from Minkowski reduction. The Delaunay cell derives from Selling reduction. All are related to the Wigner–Seitz (or Dirichlet, or Voronoi) cell of the lattice, which consists of the points at least as close to a chosen lattice point as they are to any other lattice point. The three non-coplanar lattice vectors chosen are here called the Niggli-reduced cell edges. Starting from a Niggli-reduced cell, the Dirichlet cell is characterized by the planes determined by 13 lattice half-edges: the midpoints of the three Niggli cell edges, the six Niggli cell face-diagonals and the four body-diagonals, but seven of the lengths are sufficient: three edge lengths, the three shorter of each pair of face-diagonal lengths, and the shortest body-diagonal length. These seven are sufficient to recover the Niggli-reduced cell.
A note on the wedge reversion antisymmetry operation and 51 types of physical quantities in arbitrary dimensions
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-06-05 , DOI: 10.1107/s2053273323003303
PiotrFabrykiewicz
André Authier (1932–2023)
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-06-20 , DOI: 10.1107/s2053273323005120
YvesEpelboin
Obituary for André Authier.
Extending the novel |ρ|-based phasing algorithm to the solution of anomalous scattering substructures from SAD data of protein crystals
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-10-10 , DOI: 10.1107/s2053273322008622
JordiRius,XavierTorrelles
Twenty-Fifth General Assembly and International Congress of Crystallography, Prague, Czech Republic, 14–21 August 2021
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-02-16 , DOI: 10.1107/s205327332300058x
ATAshcroft
A report of the Twenty-Fifth General Assembly and International Congress of Crystallography is given.
Magnetic, electric and toroidal polarization modes describing the physical properties of crystals. NdFeO3 case
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-12-14 , DOI: 10.1107/s2053273322009858
PiotrFabrykiewicz,RadosławPrzeniosło,IzabelaSosnowska
The structure and the physical phenomena that occur in a crystal can be described by using a suitable set of symmetry-adapted modes. The classification of magnetic modes in crystals presented in Fabrykiewicz et al. [Acta Cryst. (2021), A77, 327–338] is extended to a classification of electric and toroidal (anapole) modes in crystals. These three classifications are based on magnetic point groups, which are used in two contexts: (i) the magnetic point group of the magnetic crystal class and (ii) the magnetic site-symmetry point group of the Wyckoff position of interest. The classifications for magnetic, electric and toroidal modes are based on the properties of the three generalized inversions: space inversion 1, time inversion 1′ and the space-and-time inversion 1′. It is emphasized that none of these three inversions is more important than the other two. A new notation for symmetry operation symbols and magnetic point group symbols is proposed; each operation is presented as a product of one proper rotation and one generalized inversion. For magnetic, electric and toroidal orderings there are 64 modes: three pure ferro(magnetic/electric/toroidal) modes, 13 mixed ferro(magnetic/electric/toroidal) and antiferro(magnetic/electric/toroidal) modes, and 48 pure antiferro(magnetic/electric/toroidal) modes. The proposed classification of modes leads to useful observations: the electric and toroidal modes have many symmetry limitations similar to those already known for the magnetic modes, e.g. a continuous reorientation of the magnetic or electric or toroidal moments is possible only in triclinic or monoclinic symmetry. An antiferro(magnetic/electric/toroidal) ordering with a weak perpendicular ferro(magnetic/electric/toroidal) component is possible only in monoclinic or orthorhombic symmetry. The general classifications of magnetic, electric and toroidal modes are presented for the case of NdFeO3.
Simulating dark-field X-ray microscopy images with wavefront propagation techniques
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-10-10 , DOI: 10.1107/s205327332200866x
MadsCarlsen,CarstenDetlefs,CanYildirim,TrygveRæder,HughSimons
Revisited relativistic Dirac–Hartree–Fock X-ray scattering factors. I. Neutral atoms with Z = 2–118
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-12-19 , DOI: 10.1107/s2053273322010944
ShiroyeOlukayode,CharlotteFroeseFischer,AnatoliyVolkov
In this first of a series of publications, the X-ray scattering factors for neutral atoms are revisited. Using the recently developed DBSR_HF program [Zatsarinny & Froese Fischer (2016). Comput. Phys. Comm.202, 287–303] the fully relativistic Dirac–Hartree–Fock ground-state wavefunctions for all atoms with Z = 2–118 (He–Og) have been calculated using the extended average level scheme and including both the Breit interaction correction to the electronic motion due to magnetic and retardation effects, and the Fermi distribution function for the description of the nuclear charge density. The comparison of our wavefunctions with those obtained in several previous studies in terms of the total and orbital (spinor) electronic energies, and a number of local and integrated total and orbital properties, confirmed the quality of the generated wavefunctions. The employed dense radial grid combined with the DBSR_HF's B-spline representation of the relativistic one-electron orbitals allowed for a precise integration of the X-ray scattering factors using a newly developed Fortran program SF. Following the established procedure [Maslen et al. (2006). International Tables for Crystallography, Vol. C, Section 6.1.1, pp. 554–589], the resulting X-ray scattering factors have been interpolated in the 0 ≤ sin θ/λ ≤ 2 Å−1 and 2 ≤ sin θ/λ ≤ 6 Å−1 ranges using the recommended analytical functions with both the four- (which is a current convention) and five-term expansions. An exhaustive comparison of the newly generated X-ray scattering factors with the International Union of Crystallography recommended values and those from a number of previous studies showed an overall good agreement and allowed identification of a number of typos and inconsistencies in the recommended quantities. A detailed analysis of the results suggests that the newly derived values may represent an excellent compromise among all the previous studies. The determined conventional interpolating functions for the two sin θ/λ intervals show, on average, the same accuracy as the recommended parametrizations. However, an extension of each expansion by only a single term provides a significant improvement in the accuracy of the interpolated values for an overwhelming majority of the atoms. As such, an updated set of the fully relativistic X-ray scattering factors and the interpolating functions for neutral atoms with Z = 2–118 can be easily incorporated into the existing X-ray diffraction software with only minor modifications. The outcomes of the undertaken research should be of interest to members of the crystallographic community who push the boundaries of the accuracy and precision of X-ray diffraction studies.
Lev Feigin (1928–2022)
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-06-24 , DOI: 10.1107/s205327332200626x
DmitriSvergun,JillTrewhella
Obituary for Lev Feigin.
Report of the Executive Committee for 2021
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-12-19 , DOI: 10.1107/s2053273322007598
ATAshcroft,AMStanley
The report of the Executive Committee for 2021 is presented.
Lorentz factor for time-of-flight neutron Bragg and total scattering
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-11-21 , DOI: 10.1107/s2053273322010427
YuanpengZhang,JueLiu,MatthewGTucker
The three fundamental origins of the Lorentz factor for neutron time-of-flight powder diffraction are revisited. A detailed derivation of the Lorentz factor is presented in the context of diffuse scattering modelling in reciprocal space when perfect periodicity is assumed, and the total scattering pattern is constructed in its discrete form – the factor in this case becomes 1/Q2 (or d2). Discussion is also presented with respect to practical data reduction where a vanadium measurement is usually taken as the normalization factor (to account for various factors such as detector efficiency), and it is shown that the existence of the Lorentz factor is independent of such a normalization process.
Crystal diffraction prediction and partiality estimation using Gaussian basis functions
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-02-17 , DOI: 10.1107/s2053273323000682
WolfgangBrehm,ThomasWhite,HenryNChapman
Three-periodic nets, tilings and surfaces. A short review and new results
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-02-13 , DOI: 10.1107/s2053273323000414
OlafDelgado-Friedrichs,MichaelO'Keeffe,DavideMProserpio,MichaelMJTreacy
A brief introductory review is provided of the theory of tilings of 3-periodic nets and related periodic surfaces. Tilings have a transitivity [p q r s] indicating the vertex, edge, face and tile transitivity. Proper, natural and minimal-transitivity tilings of nets are described. Essential rings are used for finding the minimal-transitivity tiling for a given net. Tiling theory is used to find all edge- and face-transitive tilings (q = r = 1) and to find seven, one, one and 12 examples of tilings with transitivity [1 1 1 1], [1 1 1 2], [2 1 1 1] and [2 1 1 2], respectively. These are all minimal-transitivity tilings. This work identifies the 3-periodic surfaces defined by the nets of the tiling and its dual and indicates how 3-periodic nets arise from tilings of those surfaces.
On single-crystal total scattering data reduction and correction protocols for analysis in direct space. Corrigendum
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-09-23 , DOI: 10.1107/s2053273322009081
RobertJKoch,NikolajRoth,YuLiu,OlehIvashko,AnnChristinDippel,CedomirPetrovic,BoBIversen,MartinVZimmermann,EmilSBozin
The name of the third author of the article by Koch et al. [Acta Cryst. (2021). A77, 611–636] is corrected.
Crystallographic phase retrieval method for liquid crystal bicontinuous phases: indicator-based method
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-07-28 , DOI: 10.1107/s2053273322006970
ToshihikoOka
Efficient structure-factor modeling for crystals with multiple components
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-06-20 , DOI: 10.1107/s205327332300356x
PavelVAfonine,PaulDAdams,AlexandreGUrzhumtsev
A simple formula for determining nanoparticle size distribution by combining small-angle X-ray scattering and diffraction results
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-08-05 , DOI: 10.1107/s2053273322007215
SérgioLMorelhão,StefanWKycia
X-ray scattering and diffraction phenomena are widely used as analytical tools in nanoscience. Size discrepancies between the two phenomena are commonly observed in crystalline nanoparticle systems. The root of the problem is that each phenomenon is affected by size distribution differently, causing contrasting shifts between the two methods. Once understood, the previously discrepant results lead to a simple formula for obtaining the nanoparticle size distribution.
Ambiguity in indexing electron diffraction patterns of R3 crystals
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2022-10-28 , DOI: 10.1107/s2053273322008907
SruthiMohan
The R3 space group inherently lacks 2110, m001 and symmetry operations. However, in crystals with R3 symmetry, these transformations produce `pseudoplanes' with the same interplanar spacing and angles as the original crystallographic planes, causing a lack of uniqueness in the electron diffraction (ED) pattern. The difference in atomic arrangements of pseudoplanes and original planes is reflected in the intensities of diffraction spots; it is hard to differentiate in standard ED patterns, frequently causing wrong assignment of the zone axes. The implications of this ambiguity in analysis of crystal orientations are discussed in detail and a suitable routine to follow while indexing R3 ED patterns is proposed.
Dynamic tilting in perovskites
Acta Crystallographica Section A: Foundations and Advances ( IF 0 ) Pub Date : 2023-01-23 , DOI: 10.1107/s2053273322011949
ChristopherMHandley,RobynEWard,ColinLFreeman,IanMReaney,DerekCSinclair,JohnHHarding
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