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 |
| Acta Crystallographica Section B Acta Crystallographica Section B STRUCTURAL SCIENCE, CRYSTAL ENGINEERING AND MATERIALS |
| Acta Crystallographica Section C Acta Crystallographica Section C STRUCTURAL CHEMISTRY |
Structural characterization of a series of alkali metal coordination polymers of gallic acid
The rich coordination chemistry of gallic acid has been explored by treatment of the acid with alkali metal acetate salts. The crystal structures of six new alkali metal-based coordination polymers of gallic acid have been obtained using single-crystal X-ray diffraction techniques.
Synthesis, structure and orange-light emission of a zero-dimensional antimony(III) halide with the 4,4′-(ethane-1,2-diyl)dipyridin-1-ium cation
The hybrid halide [H2bpa][SbCl5] [H2bpa is 4,4′-(ethane-1,2-diyl)dipyridin-1-ium] exhibits efficient orange emission centred at 600 nm with a photoluminescence quantum yield of 65.57%.
A new Dion–Jacobson-type perovskite with an isomorphic phase transition
A novel Dion–Jacobson hybrid perovskite, (R)-3-(dimethylamino)pyrrolidinium tetrabromidoplumbate(III), with a single chiral organic cation, was successfully synthesized and undergoes a reversible first-order isomorphic structural phase transition at 448 K, accompanied by obvious thermal hysteresis.
| Acta Crystallographica Section D Acta Crystallographica Section D STRUCTURAL BIOLOGY |
Avoiding pitfalls when modelling ligands in macromolecular crystallography
Flawed protein-ligand X-ray structures can misdirect drug discovery based on PDB-deposited models. This review uses publicly available PDB examples to highlight potential pitfalls—from absent ligands to incorrect chemistry—and presents a practical validation approach to improve model reliability.
Room-temperature crystal structure of a metal-dependent W-formate dehydrogenase by serial synchrotron crystallography
We report a room-temperature serial synchrotron X-ray (SSX) crystallography structure analysis of the Nitratidesulfovibrio vulgaris formate dehydrogenase AB (NvFdhAB), an enzyme that reduces CO2 to formate.
Replacement soaking for human tankyrase 2 enables studies on substrate analogues and inhibitors
Replacement soaking, also known as cross-soaking, is a compelling method for solving complex structures in cases where traditional soaking and co-crystallization approaches fail. This method is demonstrated with human tankyrase 2 (TNKS2), and new crystal structures of complexes with nanomolar inhibitors and an analogue of the substrate NAD+ are reported.
Advances in the nanostructure characterization of biological hydrogels formed by the prion-like domain EARLY FLOWERING 3
In biological systems, hydrogels often arise through liquid-liquid phase separation (LLPS), where biomolecular condensates can age into gel-like states. SAXS is a key technique to probe the molecular organization of these samples. This study introduces an in-vacuum Gel-Cell for SAXS-based structural analysis of a biologically derived hydrogel formed by the thermosensory prion-like domain of EARLY FLOWERING 3 (ELF3) and presents a three-component model to interpret these obtained data.
Influence of heme and pH on the oligomeric states of Brucella melitensis bacterioferritin
In this work, Brucella melitensis Bacterioferritin (BmBfr) oligomerization was studied using X-ray crystallography, size exclusion chromatography and thermal shift analysis. Those techniques allowed the characterization of both apo- and holo-BmBfr, highlighting heme and pH impact on the oligomerization mechanism.
An unattended image-processing pipeline for on-the-fly quality assessment and 3D exploration in cryo-EM
We present a fully automated, unattended cryo-EM pipeline that serves as an on-the-fly diagnostic tool, enabling rapid data quality assessment and informed decision-making to maximize data-collection efficiency.
Dose-dependent structural and electron-density features in the lytic polysaccharide monooxygenase NcAA9D
A series of 36 structures of the Neurospora crassa LPMO NcAA9D were refined against X-ray crystal datasets collected with increasing dose from a single crystal to provide insights into dose-dependent structural changes at the active site of the enzyme. The findings underscore the importance of minimizing accumulated dose during cryo-X-ray crystallography studies of lytic polysaccharide monooxygenases to prevent misinterpretation of radiation damage-related electron density features.
Protein Data Bank (PDB) Archive: a new architecture (beta) for scalable, PDBx/mmCIF-based data distribution
wwPDB has extended PDB IDs to 12 characters with a prefix `pdb_' followed by eight alphanumeric characters in lower case (for example pdb_1000axyz). A beta version of the PDB Archive (https://files-beta.wwpdb.org), with extended PDB IDs and an improved directory structure, is now available to help communities adopt extended PDB IDs and PDBx/mmCIF format.
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| Acta Crystallographica Section E Acta Crystallographica Section E CRYSTALLOGRAPHIC COMMUNICATIONS |
The adduct of di-μ2-hydroxido-bis[chloridodiphenyltin(IV)] with two molecules of 2-vinylpyridine
Single crystals of [Ph2Sn(OH)Cl·2Vipy]2 obtained as side product during the reaction of diphenyltin(IV) dichloride with 2-vinylpyridine, 2Vipy, have been structurally characterized by X-ray diffraction with respect to the influence of the adduct's non-centrosymmetry on bond lengths and angles.
Structure of tetrakis(pentafluorophenoxido)bis(tetrahydrofuran)titanium(IV)
The crystal structure of the tetrakis(pentafluorophenoxy)bis(tetrahydrofuran)titanium(IV) complex is described, in which the titanium(IV) ion adopts a distorted octahedral coordination geometry. The coordinated tetrahydrofuran ligands adopt a cis configuration.
Synthesis, structure and energy calculations of 4-{4-[(2,3-dioxoindol-1-yl)methyl]-1H-1,2,3-triazol-1-yl}butyl acetate
In the title compound, almost planar isatin and triazole rings are inclined by 78.47 (5)°. The molecules link into infinite chains along the b-axis direction through intermolecular bifurcated C—H⋯O hydrogen bonds. π–π and C—H⋯π(ring) interactions also help to consolidate the crystal packing.
Synthesis and crystal structure of 2-amino-4-(3-isobutyl-1-phenyl-1H-pyrazol-4-yl)-7,7-dimethyl-5-oxo-5,6,7,8-tetrahydro-4H-chromene-3-carbonitrile
The two independent molecules of the title chromenecarbonitrile are related by approximate translation but differ in the orientation of the phenyl substituent. They are connected by classical N—H⋯Npyrazole hydrogen bonds N—H⋯Npyrazole to form a ribbon. The ribbons are joined by `weak' Cpyrazole—H⋯Nnitrile hydrogen bonds to form a layer structure.
| Acta Crystallographica Section F Acta Crystallographica Section F STRUCTURAL BIOLOGY COMMUNICATIONS |
Structure of human aldehyde oxidase under tris(2-carboxyethyl)phosphine-reducing conditions
Here, we report and characterize a new crystallization condition with pre-incubation of human aldehyde oxidase 1 with TCEP, a sulfur-free reducing agent that does not inactivate the enzyme.
WebCalEM: a browser-based tool for routine and accurate pixel-size calibration in cryo-EM
WebCalEM is a browser-based, install-free application that performs routine cryo-EM pixel-size calibration directly from gold or graphene oxide reflections in standard sample-support grids using subpixel Fourier-space peak localization; it reproduces the precision of established command-line calibration tools while removing the installation barrier and supporting retrospective per-region calibration on archived datasets.
| Journal of Applied Crystallography Journal of Applied Crystallography |
Resolving ambiguity: an integrated approach to bending geometry identification in flexible organic crystals
This work introduces an integrated protocol that combines computational modeling, microscopy and directed diffraction to unambiguously identify the bending geometry in flexible organic crystals, overcoming the limitations of conventional methods. Applied to three model compounds, the protocol definitively resolved their active slip systems, providing a robust and generalizable framework essential for establishing reliable structure–property relationships in this field.
Gas-controlled capillary spinner for time-resolved powder X-ray diffraction under dynamic conditions
The newly developed gas-controlled capillary spinner enables continuous high-speed sample rotation during in situ powder X-ray diffraction under dynamic gas conditions. By improving the uniformity of the diffraction intensity, this system enables reliable millisecond time-resolved structural analysis for operando studies.
Separating the size distributions for interstitial and vacancy-type dislocation loops using integral X-ray diffuse scattering
A rigorous integral X-ray diffuse scattering (XRDS) method is presented for experimentally determining separate size distributions for interstitial and vacancy-type dislocation loops in irradiated single-crystalline materials. This new capability is facilitated by a numerical formulation for directly evaluating the integral XRDS intensities associated with individual defect clusters, and the technique is demonstrated by analyzing measurements of ion-irradiated tungsten that show distinct size distributions for the two loop types.
Measurements and scaling of X-ray total scattering from single crystals
A measurement protocol and data reduction workflow are presented for obtaining single-crystal X-ray total-scattering datasets on an absolute scale, capturing both Bragg and diffuse intensities from the same dataset. The study demonstrates consistency between scale factors derived from Bragg refinements and from spherical integration of the total-scattering signal against a theoretical baseline, paving the way for structural refinements that simultaneously fit both contributions.
EQSANS-CLI: a natural-language agent-ready command-line tool for small-angle neutron scattering data reduction at EQ-SANS
EQSANS-CLI is a command-line tool for small-angle neutron scattering data reduction. It exposes the full reduction pipeline through two input surfaces, an interactive terminal that accepts both slash commands and natural language, and a headless JSON mode designed for external AI agents, both built on a shared command-handler layer.
Integrated analysis with iCM-SANS, SAXS and MD simulations for dynamics of multi-domain proteins
Segmental deuteration, combined with inverse contrast-matching small-angle neutron scattering (iCM-SANS) and small-angle X-ray scattering (SAXS), provides structural constraints that improve discrimination of conformation ensembles of multi-domain proteins derived from molecular dynamics (MD) simulations.
Grazing-incidence scattering surveyed: towards reference methods for alignment and calibration
With the recent gain in popularity of grazing-incidence instruments, harmonization is needed to establish intercomparability. This large review of existing instruments and methods highlights the diversity of approaches in the community, and is a first step towards reference methods.
Rep3D: an algorithm to identify structurally similar motifs
The Rep3D algorithm has been developed to enable rapid and accurate identification of repeats in the three-dimensional structure of proteins, significantly improving our understanding of protein functions and interactions.
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| Journal of Synchrotron Radiation Journal of Synchrotron Radiation |
Single-shot third-harmonic spectral diagnostics for tender X-ray FEL pulses using a bent crystal spectrometer
Third-harmonic spectral monitoring with an existing bent-crystal spectrometer provides single-shot bandwidth diagnostics and real-time machine tuning for tender X-ray FEL operation, and can be made non-invasive when combined with a suitable beam-sampling grating.
Fine-tuning ab initio XANES spectra calculations using the Bayesian optimization algorithm
A Bayesian Optimization technique is used to tune the FEFF and FDMNES packages and to improve matching between theoretical and experimental spectra. The tests were performed on monometallic Ni, Fe and Pd K-edge XANES spectra using several different spectrum similarity metrics.
The prototype DynamiX camera system – a high-frame-rate high-dynamic-range hard X-ray integrating detector for fourth-generation synchrotrons
This paper presents the first results from the DynamiX X-ray imaging detector developed by the UK's Science and Technology Facilities Council for a new generation of photon light sources. Operating at a continuous frame rate of 534 kHz and with a per-pixel per-frame dynamic range of roughly five orders of magnitude, this work is the first step in delivering a transformative new imaging technology.
A high-energy X-ray beamline for materials science research at SPring-8: BL15XU
The Japanese synchrotron facility SPring-8 has recently relaunched BL15XU as a high-energy X-ray beamline for materials science research. A comprehensive description of the technical details and science cases is presented.
A beam direction cross-vessel metrology method and error analysis for ptychography setup at HEPS ID09
A beamline-direction cross-vessel metrology method and error analysis for ptychography setup at HEPS ID09 is proposed and implemented. A 9.5 nm reconstruction resolution of ptychography demonstrates the validity of metrology.
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The use of machine learning interatomic potentials for the verification of experimental molecular crystal structures
Machine learning interatomic potentials (MLIPs) offer a significantly faster alternative to density functional theory for theoretical crystal structure calculations with comparable accuracy. Geometry-optimized structures generated using the Universal Models for Atoms MLIP, trained on the Open Molecular Crystals 2025 dataset, were used to verify 216 919 selected structures from the Cambridge Structural Database. The aim was to detect issues in both the interpretation of the original X-ray experiments and the performance of the used MLIP.
Magnetic order in Tsai-type icosahedral quasicrystals and periodic approximants
This review summarizes recent experimental and theoretical advances in the magnetism of quasicrystals and their approximant crystals and formulates two hierarchical design principles – valence electron concentration and crystal electric field-induced anisotropy – as primary tools for systematically tuning the magnetic ground states in these compounds.
Droplet-on-demand tape drive and X-ray emission spectroscopy prototypes for time-resolved serial crystallography on VMXi at Diamond Light Source
We describe proof-of-concept experiments towards correlated serial synchrotron crystallography (SSX) and X-ray emission spectroscopy (XES) from microcrystals on a microfocus synchrotron beamline. A droplet-on-demand tape drive system delivers microcrystals to the beam within well separated droplets with a volume of hundreds of picolitres, while XES allows validation of the redox states of metals within protein crystals.
Quantifying optical scattering losses in pump–probe serial femtosecond crystallography experiments
Similar yields of the optically excited fractions of fatty acid photodecarboxylase crystals in pump–probe serial femtosecond crystallography (SFX) experiments using both fixed-target and high-viscosity extrusion (HVE) sample delivery approaches show that pump light scattering reduces the photon flux reaching the crystals in transparent high-viscosity jets by 20–40%, depending on delivery method. This experimental result contradicts previous reports of up to 99% scattering losses, which were argued to justify the use of extremely high pump laser energy densities without entering multiphoton absorption regimes.
Post-acquisition super resolution for cryo-electron microscopy
Post-acquisition super resolution (PASR) is a pre-processing step which can be utilized to exceed the resolution limit of already acquired data if the limit is reached. It is designed to be as minimally invasive to all general single particle workflows as possible, allowing users to choose which suite they prefer.
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