forthcoming articles
The following articles are a selection of those recently accepted for publication in IUCr journals.
Acta Crystallographica Section A Acta Crystallographica Section A FOUNDATIONS AND ADVANCES |
research papers
Symmetric 3-periodic polycatenanes: catenated rings, polyhedra and rods
We describe 3-periodic, vertex- and arc-transitive, polycatenated structures formed from rings, polyhedra and rods. There are infinite families of infinite structures, and this report is restricted to those structures with units linked to three or six others.
research papers
Crystallography of quasiperiodic moiré patterns in homophase twisted bilayers
The quasiperiodic nature of moiré patterns in homophase twisted bilayers is analyzed to understand the underlying basic periodicities and symmetries of homophase twisted bilayers built on any 2D structure.
Acta Crystallographica Section B Acta Crystallographica Section B STRUCTURAL SCIENCE, CRYSTAL ENGINEERING AND MATERIALS |
research papers
research papers
research papers
research papers
research papers
Photoelasticity of crystals with the scheelite structure: quantum mechanical calculations
The methodology proposed combines the DFT calculations and photoelasticity caused by uniaxial compression of the crystal lattice, with particular emphasis on its anisotropy. It can be considered as part of optical engineering aimed at preliminary assessment of the photoelastic properties of crystal materials, thus assisting in their selection for synthesis and relevant applications.
research papers
Crystal structure and doping in synthetic enstatite: an analysis of Li/Fe3+-doped single-crystal samples
Several Li+/Fe3+-doped Pbca orthoenstatite and Pbcn protoenstatite crystals were characterized revealing that varying levels of doping preferentially affect the pyroxene topologies.
research papers
research papers
Modulation of the modulated magnetic structure of an Ho i-MAX phase described by a magnetic (3+2)-dimensional superspace group
A rare complex incommensurate magnetic structure, an amplitude-modulated structure which itself is modulated, was determined in the Ho-based i-MAX phase (Mo2/3Ho1/3)2GaC. It represents a particularly distinctive case of a 2-k magnetic structure with no symmetry relation between the propagation vectors.
topical review
Crystallization induced by fungi and bacteria
The patterns of microbial crystallization are controlled by the chemical composition of biofilms associated with environmental exposure and the activity of microorganisms. The nutrition of microorganisms changes the oxalic acid and extracellular polymer substance content in the products of microbial metabolism, which significantly affects the medium pH promoting either the oxalate or carbonate crystallization.
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Acta Crystallographica Section C Acta Crystallographica Section C STRUCTURAL CHEMISTRY |
research papers
Monoprotonated species of 2-aminomalonyl difluoride, [C3H4F2NO2][H2F3]
The monoprotonated species of 2-aminomalonyl difluoride, [C3H4F2NO2][H2F3], is particularly interesting for the protonation in superacidic media, as well as in Lewis acidic media, due to its two acyl fluoride moieties. The crystal structure is the first single-crystal X-ray diffraction measurement of this compound or its salts.
research papers
Fast event-based electron counting for small-molecule structure determination by MicroED
Fast readout event-based electron counting (EBEC) is a promising detection strategy to determine accurate ab initio structures of beam-sensitive small molecules by MicroED. A fast EBEC approach enhances the dynamic range of MicroED data by limiting the likelihood of coincidence loss (CL) – the undercounting of electrons due to their spatially and temporally unresolved arrival on a direct electron detector. As implemented by new counting detectors, fast EBEC allows structure-worthy data sets to be captured from individual small-molecule crystals in under a minute.
Acta Crystallographica Section D Acta Crystallographica Section D STRUCTURAL BIOLOGY |
research papers
Structural characterization of the ACDC domain from ApiAP2 proteins, a potential molecular target against apicomplexan parasites
Crystal structures of ACDC domains derived from distinct Plasmodium ApiAP2 proteins reveal a conserved, unique noncanonical four-helix bundle architecture.
Acta Crystallographica Section E Acta Crystallographica Section E CRYSTALLOGRAPHIC COMMUNICATIONS |
research communications (GO)
Crystal structures of three salts of the triphenylsulfonium ion
The crystal structures of three salts of triphenylsulfonium ion are reported, namely, triphenylsulfonium triiodide (I), triphenylsulfonium perchorate (II), triphenylsulfonium hexafluorophosphate (III).
research communications (GO)
Synthesis, crystal structure and Hirshfeld surface analysis of 5,5-diphenyl-2-[2-(propan-2-ylidene)hydrazin-1-yl]-4,5-dihydro-1H-imidazol-4-one N,N-dimethylformamide hemisolvate
The asymmetric unit consists of two independent molecules of the substituted imidazolone having different conformations, and one molecule of solvent DMF. The two imidazolone molecules are linked by N—H⋯N and C—H⋯O hydrogen bonds and the DMF is joined to one of these by a N—H⋯O hydrogen bond. Additional N—H⋯N and C—H⋯O hydrogen bonds link these groups into corrugated layers parallel to the (101) plane with the layers joined by C—H⋯π (ring) interactions.
research communications (GM)
Crystal structure of poly[μ3-acetato-diaqua-μ3-sulfato-cerium(III)]: serendipidous synthesis of a layered coordination polymer exhibiting interlayer O—H⋯O hydrogen bonding
In the crystal structure of the title compound, the CeIII cations are ninefold coordinated and linked into chains via the acetate anions and are further connected into layers by the sulfate dianions.
research communications (GM)
(2,9-Dimethyl-1,10-phenanthroline)bis[2-(pyridin-2-yl)phenyl]iridium(III) hexafluorophosphate and (2,9-dimethyl-1,10-phenanthroline)bis[5-methyl-2-(pyridin-2-yl)phenyl]iridium(III) hexafluorophosphate–diethyl ether–acetonitrile (1/0.61/0.78)
The title compounds exhibit Ir—C and Ir—N bond lengths typical of cyclometallated iridium compounds with phenylpyridine ligands. Methylation of the phenanthroline ligand leads to longer Ir—N bond lengths compared to the unmethylated analog.
Acta Crystallographica Section F Acta Crystallographica Section F STRUCTURAL BIOLOGY COMMUNICATIONS |
methods communications
research communications (RC)
Serendipitous high-resolution structure of Escherichia coli carbonic anhydrase 2
Contaminating proteins from the expression source may inadvertently crystallize instead of the target protein of interest. Two novel crystal forms of E. coli carbonic anhydrase 2, as well as a high-resolution (1.43 Å) structure of the enzyme, are reported.
research communications (RC)
Crystallographic analysis of the Escherichia coli tRNA seleno-modification enzyme in complex with tRNA
tRNA 2-selenouridine synthase (SelU) produces a 5-substituted 2-selenouridine at the tRNA wobble position, which can fine-tune translation. Crystals of the SelU–tRNA complex were obtained and the initial structure was determined at 3.10 Å resolution.
Journal of Applied Crystallography Journal of Applied Crystallography |
research papers
New robotic tools for multimodal non-destructive analysis and characterization of 2D and 3D objects
The forensic field requires versatile equipment for non-destructive characterization, analysis and inspection of 2D and 3D objects. The robotic scanner introduced here allows transmission X-ray imaging and mapping of individual photons with high-sensitivity and -resolution detectors. The broad capabilities of X-ray diffraction (XRD) imaging are now being complemented by X-ray fluorescence point analysis and mapping, multispectral macro imaging, and multispectral XRD analysis.
research papers
Integral X-ray diffuse scattering for studying irradiation-induced dislocation loops in single crystals
A computational and experimental investigation of integral X-ray diffuse scattering near Bragg reflections with a wide-open detector is presented for the case of small circular irradiation-induced dislocation loops in metals. The large wavevector asymptotic power-law falloff for such loops is determined computationally and incorporated into numerical and analytical integral X-ray diffuse scattering cross-section calculations. These calculations are shown to enable the experimental determination of the size distribution and concentrations of irradiation-induced dislocation loops in single-crystalline tungsten.
research papers
A comparison of microcrystal electron diffraction and X-ray powder diffraction for the structural analysis of metal–organic frameworks
Microcrystal electron diffraction (microED) was used to determine the crystal structure of a recently synthesized metal–organic framework (MOF) from powder crystallites. The structural descriptions of two other MOFs by microED are compared with results previously published using X-ray powder diffraction supported by density functional theory calculations.
computer programs
crystchemlib, a Python library and GUI for analysis of crystal structure datasets
The proposed Python library and graphical user interface (GUI) provide an open-source solution for crystal chemical analysis of both user data and published datasets. A user-friendly GUI ensures availability of the basic library features for crystallographers without programming skills, whereas more advanced use is possible for those familiar with Python.
research papers
Measuring the Burgers vector of dislocations with dark-field X-ray microscopy
This work introduces the first direct comparison of contrast arising from dislocations using dark-field X-ray microscopy (DFXM) and the established method of transmission electron microscopy (TEM). We propose a method to directly measure the Burgers vector of a dislocation based on the symmetry with which DFXM scans across a rocking curve for a given diffraction peak.
teaching and education
Top dusted adhesive tape sample preparation method for the X-ray diffraction analysis of small powder sample volumes with the Bragg–Brentano setup
This work provides practical information on the conventional top dusted sample preparation method and the top dusted adhesive tape sample preparation method. For the top dusted adhesive tape method, tapes with matte acetate or polyvinyl chloride backing are recommended as they cause a comparatively low background signal without high-intensity reflections.
research papers
Simulation of bent Laue crystals for a high-energy X-ray monochromator with heat load consideration
To assess the performance of a double-crystal Laue-case monochromator, this study utilizes crystal simulation which integrates two diffraction profile calculation methods, two crystal depiction approaches and dual thermal distortion treatments. The thermal assessment effectively captures interior lattice plane distortions, enabling the simulation of crystal conditions closely matching actual scenarios.
research papers
hkl-based calculation of total scattering patterns from discrete and low-dimensional structure models using TOPAS
A demonstration is given of the use of discrete and low-dimensional structure models within the periodic formalism of conventional Rietveld refinement software for the calculation of total scattering patterns.
research papers
Studying novel high-pressure phases in laser-shock-affected silicon using poly: an algorithm for spot-wise phase identification
This article describes a new phase identification algorithm called poly intended for spotty selected-area electron diffraction patterns collected from polymorphic nanomaterials. We have developed this new approach to determine the predominant high-pressure phases produced in laser-shock-affected regions of silicon. In this study, applying this algorithm allowed us to reliably identify two new t32-Si and t32*-Si phases and indicate their relaxation time in other metastable high-pressure silicon phases.
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Journal of Synchrotron Radiation Journal of Synchrotron Radiation |
research papers
Probing Soft X-ray Induced Photoreduction of a Model Mn-Complex at Cryogenic Conditions
This controlled radiation damage study at different temperatures allows to refine approaches to measure radiation damage free/limited spectra from redox senstiive metalloenzymes and metal complexes in the soft X-ray regime at synchrotrons.
research papers
Compensation for the source drift of a free-electron laser beamline by adjusting the fixed-focus constant of the grating monochromator
A method for compensating for the source drift of a free-electron laser beamline by adjusting the Cff value of a grating monochromator is introduced.
research papers
Long-term timing stabilization for pump–probe experiments at SACLA
A timing control system to stabilize the long-term timing drift between X-ray free-electron laser (XFEL) and optical laser pulses has been developed by utilizing an out-of-loop balanced optical-microwave phase detector and an arrival-timing monitor. The timing jitter and drift between the XFEL and the optical laser pulses have been reduced to less than 50 fs (RMS) over ∼49 h.
research papers
research papers
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Novel fixed-target serial crystallography flip-holder for macromolecular crystallography beamlines at synchrotron radiation sources
We present the development of a novel fixed-target flip-holder for synchrotron serial crystallography. This holder simplifies the sample handling process, reduces dehydration risks, and enables efficient crystallography experiments with minimal sample consumption, demonstrated through successful lysozyme crystal structure determination at room temperature.
research papers
Understanding the selectivity of nonsteroidal anti-inflammatory drugs for cyclooxygenases using quantum crystallography and electrostatic interaction energy
This study employs quantum crystallography to elucidate the selectivity of NSAIDs, including ibuprofen, flurbiprofen, meloxicam, and celecoxib, for COX-1 and COX-2 enzymes by analyzing binding energy and electrostatic interactions. The findings reveal key structural determinants of NSAID selectivity, providing valuable insights for the rational design of safer and more effective anti-inflammatory drugs.
research papers
Single-shot X-ray imaging of two-dimensional strain fields in colloidal crystals
We used the Bragg coherence diffraction imaging (BCDI) method at the Coherent Scattering and Imaging (CSI) endstation of the Shanghai Soft X-ray Free Electron Laser Facility (SXFEL) to characterize colloidal crystals. This method was successfully reproduced the static shape of crystals and observed the defect structure of colloidal samples.
research papers
Novel starting points for fragment-based drug design against human heat-shock protein 90 identified using crystallographic fragment screening
This is the first instance completed by the crystallographic fragment-screening platform of the Shanghai Synchrotron Radiation Facility (SSRF) in China. 800 fragments were screened and 91 compounds were identified to bind at eight different sites.
research papers
Accounting for electron beam-induced warping of molecular nanocrystals in MicroED structure determination
Here we identify and characterize the warping of molecular crystal lattices induced by electron beam exposure during microcrystal electron diffraction (MicroED/3DED) data collection. We find changes to consensus crystal lattice orientation that are often dramatic, and appear ubiquitous in small organic molecule crystals. This evidence highlights the relevance of crystal bending or warping as a consequence of radiation-induced damage on molecular specimens, and points to it as a fundamental source of error in MicroED/3DED data collection and structure determination.
research papers
Experimental electronic structure of copper complexes with biphenyldiimino dithioether – model of blue copper proteins
Differences in the electronic structures of Cu(I) and Cu(II) coordination compounds with the same ligand as the model structures of `blue copper proteins' were studied.
research papers
A new statistical metric for robust target detection in cryo-EM using 2D template matching
A novel statistical metric for 2D template matching (2DTM), the 2DTM p-value, has been developed to improve the detection of targets in cryo-EM images under various imaging and sample conditions, particularly for smaller and aspherical targets.
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