X-ray Diffraction Data Sets Research Articles

Crystallization and crystallographic studies of human serine protease inhibitor (serpin) B9.

Serine protease inhibitor B9 (serpin B9, also known as protease inhibitor 9 or PI9) plays a critical role in regulating the immune response by specifically inhibiting granzyme B, a serine protease found in cytotoxic T lymphocytes and natural killer cells. Despite its potential as an anticancer drug target, the structural details of serpin B9 have remained elusive until now. In this study, a cleaved form of recombinant human serpin B9 was successfully prepared and crystallized. The crystals belonged to space group P212121, with unit-cell parameters a = 68.51, b = 82.32, c = 101.17 Å, and an X-ray diffraction data set was collected at 1.9 Å resolution. The structure shows that serpin B9 adopts a relaxed conformation, with its cleaved reactive-centre loop inserted into the central β-sheet. Unlike other serpins, serpin B9 shows significant structural deviations around helix D, with a larger surface cavity, which could serve as a promising target for small-molecule inhibitors.

Photothermal Properties of Solid-Supported Gold Nanorods.

Gold nanoparticles possess unique photothermal properties and have gained considerable interest in biomedical research, particularly for photothermal therapy (PTT). This study focuses on evaluating the photothermal properties of gold nanorods (AuNRs) supported on glass substrates upon excitation with near-infrared (NIR) light. Two aspect ratios of AuNRs were electrostatically immobilized onto glass with controlled coverage. In situ X-ray diffraction (XRD) was performed to evaluate the photothermal behavior and morphological changes of the supported AuNRs during NIR laser irradiation. The XRD data sets were corroborated with scanning electron microscopy and Vis-NIR spectroscopy characterization. XRD revealed a linear temperature increase with laser power, aligning with theoretical predictions, and a slope dependent on the AuNR coverage, until the onset of morphology transformations around 120 °C. This study provides valuable insights into the photothermal properties of supported AuNRs, crucial for their application in PTT.

Monoclinic Pleysteinite and Hochleitnerite from the Hagendorf-Süd Pegmatite: Synchrotron Microfocus Diffraction Studies on Twinned Members of Paulkerrite-Group Minerals

Abstract Single-crystal X-ray diffraction data sets for pleysteinite, [(H2O)K]Mn2Al3(PO4)4F2(H2O)10·4H2O, and hochleitnerite, [(H2O)K]Mn2(Ti2Fe)(PO4)4O2(H2O)10·4H2O, collected using a synchrotron microfocus beam, gave monoclinic unit cells, in contrast to previously reported orthorhombic cells obtained using laboratory-based sealed-tube diffractometer data. The differences are attributed to twinning in crystals of the two minerals. As the laboratory diffractometer beam diameter of the sealed-tube SXRD is larger than the crystals that were analyzed, the diffraction results were averaged over the different twin domains, whereas those obtained with the synchrotron microfocus beam gave diffraction data wholly or predominantly from a single domain. Data from the synchrotron datasets give a = 10.440(5) Å, b = 20.588(5) Å, c = 12.234(2) Å, β = 90.38(1)° for pleysteinite and a = 10.547(2) Å, b = 20.577(4) Å, c = 12.373(2) Å, β = 90.09(3)° for hochleitnerite. The crystal structures for both minerals were refined in P21/c, giving Robs = 0.059, 0.058 for 5951, 6718 reflections with I > 3σ(I), respectively. The ideal formulae for the two minerals in this setting conform to the general formula A1A2M12M22M3(PO4)4X2(H2O)10·4H2O, with K and H2O ordered at separate A sites, whereas K and H2O were disordered over a single A site in the orthorhombic models (space group Pbca). Crystal-chemical aspects of the paulkerrite-group minerals, pleysteinite, hochleitnerite, paulkerrite, rewitzerite, and macraeite, are compared and discussed.

Structure of TeO2 Glass and Melt by Reverse Monte Carlo Simulations of High-Energy X-Ray Diffraction Data Sets.

The short-range and medium-range structures of TeO2 glass and melt are elucidated by Reverse Monte Carlo (RMC) simulations of High-Energy X-ray Diffraction data sets published in an earlier study by Alderman et al. (J. Phys. Chem. Lett.11(1) (2020)427-431). The RMC analysis reveals that there exists a wide range of Te-O bond lengths in both TeO2 glass and melt short-range structures. The Te-O pair distribution function (PDF) of the melt has peaks centered at 1.87, 2.06, 2.35, 2.65, and 3.00 (±0.01) Å, whereas the corresponding peaks in the glass are at 1.91, 2.07, 2.28, 2.54, 2.77, and 3.00 (±0.01) Å. The Te-O partial PDF of the melt shows a peak at 2.35 Å, which is not present in the glass structure; therefore, the same co-ordination sphere radius of 2.36 Å cannot be used for calculating the Te-O co-ordination numbers in the TeO2 melt and glass, as done in the earlier study by Alderman et al. Using a more appropriate radius of 2.41 Å for glass and 2.22 Å for the melt, the corresponding Te-O co-ordination numbers are found to be 3.99 and 3.33, respectively. The RMC analysis successfully determined the O-O pair distributions, which show the first peaks at 2.31-2.33 (±0.01) Å. Finally, Te-Te pair distributions show peaks at slightly longer distances in the melt compared to those in glass, and the melt is found to have greater medium-range disorder.

Crystal structure of Methionyl-tRNA Synthetase from Rickettsia typhi in complex with its cognate amino acid

Rickettsia typhi is the causative agent of murine typhus (endemic typhus), a febrile illness that can be self-contained, though in some cases it can progress to death. The three dimensional structure of Methionyl-tRNA Synthetase from R. typhi (RtMetRS) in complex with its substrate l-methionine was solved by molecular replacement and refined at 2.30 Å resolution in space group P1 from one X-ray diffraction dataset. Processing and refinement trials were decisive to establish the lower symmetry space group and indicated the presence of twinning with four domains. RtMetRS belongs to the MetRS1 family and was crystallized with the CP domain in an open conformation, what is distinctive from other MetRS1 enzymes whose structures were solved with a bound L-methionine (therefore, in a closed conformation). This conformation resembles the ones observed in the MetRS2 family.

Machine Learning Automated Analysis of Enormous Synchrotron X-ray Diffraction Datasets

Machine Learning Automated Analysis of Enormous Synchrotron X-ray Diffraction Datasets

Prachařite, CaSb5+2(As3+2O5)2O2·10H2O, a new mineral from Lavrion, Greece

Prachařite, ideally CaSb5+2(As3+2O5)2O2·10H2O, is a new mineral found in underground workings of the Plaka Mine No. 80, Plaka, Lavrion Mining District, Attica, Greece. It occurs as colourless to white, thin tabular hexagonal, in general sharp crystals up to 2.5 mm in diameter, and is associated with pharmacolite, sulphur and very rare smamite {Ca2Sb(OH)4[H(AsO4)2]·6H2O} on a matrix composed of sphalerite, galena and carbonate gangue. Prachařite is translucent to transparent, with a glassy lustre, white streak, a good cleavage parallel to {0001} and a distinct cleavage parallel to {10overline{1 }0}. It is non-luminescent, brittle, and has an uneven fracture, a Mohs hardness of 2–2.5 and X-ray density Dx = 2.848 g/cm3, Dcalc. = 2.836–2.853 g/cm3 (for two measured compositions). Optically, it is uniaxial negative, with ω = 1.619(1) and ε = 1.553(1). Prachařite is trigonal, space group Poverline{3 }c1 (no. 165), with a = 13.951(2), c = 19.899(2) Å, V = 3354.1(10) Å3 and Z = 6. Strongest lines in the X-ray powder diffraction pattern are [d in Å (I) hkl]: 9.894 (100) 002; 6.045 (8) 200; 5.156 (10) 202; 4.946 (11) 004; 3.297 (19) 311, 006, 222; 2.988 (22) 400, 313, 116. Two sets of independent electron probe micro-analyses yielded (wt%): CaO 6.28/7.12, MgO 0.09/-, Zn -/0.01, Sb2O5 39.22/40.19, As2O3 47.59/47.39, SO3 -/0.02, H2O 21.65/22.04 (calculated on the basis of ideal composition derived from crystal-structure determination), total 114.83/116.77; the total is reproducibly high due to a loss of a third of all water molecules under the electron beam. The empirical formulae, based on O = 22 atoms per formula unit, for the two datasets are very similar, (Ca0.93Mg0.02)Σ0.95Sb2.02(AsO3)4.00·10H2O and Ca1.04Sb2.03(AsO3)3.92·10H2O. The ideal formula is CaSb5+2(As3+2O5)2O2·10H2O, determined with the help of a crystal-structure determination based on single-crystal X-ray diffraction datasets collected at room temperature (R1 = 2.3%). The atomic arrangement of prachařite is unusual; it is based on two different layers containing a six-membered ring of corner-sharing SbO6 octahedra, an eight-coordinated Ca1 atom in the centre of the ring, two non-equivalent AsO3 groups corner-linked to form a (As2O5)4− diarsenite group, and, on interlayer sites, a seven-coordination Ca2 atom and three water molecules (all only weakly hydrogen-bonded), one of which is only partially occupied (split position). The mineral is named in honour of Dr Ivan Prachař, a long-term researcher of the mineralogy and underground workings of Lavrion.

Visualizing local bending of lattice planes by extending two-azimuth synchrotron X-ray diffraction datasets to asymmetric reflection

Synchrotron X-ray rocking curve imaging (RCI) is modified to visualize local bending of lattice planes of a single crystal substrate (XR-V-LBLP). This method uses two-azimuth RCI datasets of asymmetric reflection or symmetric reflection. The analysis algorithm is described and a Python software code is provided in the Supplementary material. The two symmetrically equivalent 112¯4 datasets obtained from a GaN (0001) 4-inch wafer are reanalyzed using this software. The normal vector, reciprocal-lattice vector, of the local lattice planes, which is approximately parallel to the sample surface, is formulated as the product of two rotation matrices. This vector is written in polar coordinates using the length and two declination angles, newly introduced in this article. The spatial and probability distributions of the declination angles are also presented. The proposed method enables visualization of the local shape or orientation of the lattice planes of the entire wafer. The limits of application of the method are examined for the samples studied. The sample is found to satisfy two conditions regarding the relative d-spacing difference and the curvature of the lattice planes at all 50 adjacent μm positions.

Aspherical atom refinements on X-ray data of diverse structures including disordered and covalent organic framework systems: a time-accuracy trade-off.

Aspherical atom refinement is the key to achieving accurate structure models, displacement parameters, hydrogen-bond lengths and analysis of weak interactions, amongst other examples. There are various quantum crystallographic methods to perform aspherical atom refinement, including Hirshfeld atom refinement (HAR) and transferable aspherical atom model (TAAM) refinement. Both HAR and TAAM have their limitations and advantages, the former being more accurate and the latter being faster. With the advent of non-spherical atoms in Olex2 (NoSpherA2), it is now possible to overcome some limitations, like treating disorder, twinning and network structures, in aspherical refinements using HAR, TAAM or both together. TAAM refinement in NoSpherA2 showed significant improvement in refinement statistics compared with independent atom model (IAM) refinements on a diverse set of X-ray diffraction data. The sensitivity of TAAM towards poor data quality and disorder was observed in terms of higher refinement statistics for such structures. A comparison of IAM with TAAM and HAR in NoSpherA2 indicated that the time taken by TAAM refinements was of the same order of magnitude as that taken by IAM, while in HAR the time taken using a minimal basis set was 50 times higher than for IAM and rapidly increased with increasing size of the basis sets used. The displacement parameters for hydrogen and non-hydrogen atoms were very similar in both HAR and TAAM refinements. The hydrogen-bond lengths were slightly closer to neutron reference values in the case of HAR with higher basis sets than in TAAM. To benefit from the advantages of each method, a new hybrid refinement approach has been introduced, allowing a combination of IAM, HAR and TAAM in one structure refinement. Refinement of coordination complexes involving metal-organic compounds and network structures such as covalent organic frameworks and metal-organic frameworks is now possible in a hybrid mode such as IAM-TAAM or HAR-TAAM, where the metal atoms are treated via either the IAM or HAR method and the organic part via TAAM, thus reducing the computational costs without compromising the accuracy. Formal charges on the metal and ligand can also be introduced in hybrid-mode refinement.

HAT: a high-energy surface X-ray diffraction analysis toolkit.

This work introduces the high-energy surface X-ray diffraction analysis toolkit (HAT), an open-source cross-platform software package written in Python to allow the extraction and processing of high-energy surface X-ray diffraction (HESXRD) data sets. Thousands of large-area detector images are collected in a single HESXRD scan, corresponding to billions of pixels and hence reciprocal space positions. HAT is an optimized reciprocal space binner that implements a graphical user interface to allow the easy and interactive exploration of HESXRD data sets. Regions of reciprocal space can be selected with movable and resizable masks in multiple views and are projected onto different axes to allow the creation of reciprocal space maps and the extraction of crystal truncation rods. Current and future versions of HAT can be downloaded and used free of charge.

Preparation, Crystallization, and Preliminary X-ray Diffraction Analysis of Recombinant House Dust Mite Allergen Der p 3 from Dermatophagoides pteronyssinus

The high-producing strain С3029/pGro7/pERDerp3 for the house dust mite allergen Der p 3 from Dermatophagoides pteronyssinus, expressing the recombinant protein in Escherichia coli in the soluble form, was constructed. A procedure was developed for the purification of the recombinant allergen. Crystals of the recombinant protein Der p 3 suitable for X-ray diffraction analysis were grown by the vapor-diffusion method. The X-ray diffraction data set was collected to 2.25 Å resolution at the European Synchrotron Radiation Facility (ESRF, France, ID23-1 beamline) at 100 K. The crystals belong to sp. gr. С121 and contain two enzyme molecules per asymmetric unit.

Investigation of Medium Range Order Defects in CuxZr100-x (x = 50, 56, 60, 64) Metallic Glasses Using Reverse Monte Carlo Modeling

The identification of glassy defects in amorphous materials is a long-standing but imperative problem which hinders our deep understanding of the structural origin of mechanical behavior in metallic glasses (MGs). Here, a combination of experiments and numerical simulations were used to reconstruct the atomic packing of MGs. Using the integration of synchrotron X-ray diffraction (XRD) datasets, ab initio molecular dynamics simulations, as well as reverse Monte Carlo simulation, we determined the three-dimensional atomic positions of a series of binary MGs CuxZr100-x (x = 50, 56, 60, 64). Then we uncovered the connection of short-range clusters as well as the nature of the medium range order (MRO). It turns out that full icosahedral tend to connect to each other forming the back bones, with dimensions positively correlated with the Cu content. By quantifying the discontinuity of full icosahedral networks, we identified the MRO defects which were found to be highly influenced by the macroscopic chemical contents. Here, the density of MRO defects is growing with the decrease of Cu contents. These results suggest the reason for the stable kinetic properties and good glass forming ability of the Cu64Zr36 system, which is rich in full icosahedral clusters <0,0,12,0> but a lack of MRO defects.

New Aspects of the Reaction of Thioacetamide and N-Substituted Maleimides.

N-Arylmaleimides are universal substrates for the synthesis of various heterocyclic compounds with a wide spectrum of biological activity. However, their reactions with thioacetamides have not been comprehensively studied. We studied the reactions of thioacetamide with N-arylmaleimides under various conditions. We established for the first time that three types of products: epithiopyrrolo[3,4-c]pyridines, pyrrolo[3,4-c]pyridines and 3,3'-thiobis(1-arylpyrrolidine-2,5-diones) can be obtained in different conditions. In all cases, two maleimide molecules are involved in the reaction. 3,3'-Thiobis(1-arylpyrrolidine-2,5-diones) are the major products when the reaction is conducted at boiling in acetic acid. When thioacetamide and N-arylmaleimide are kept in dioxane at 50 °C, epithiopyrrolo[3,4-c]pyridines can be isolated, which, when heated in dioxane, in acetic acid or in methanol in the presence of catalytic amounts of sodium methoxide, are converted into pyrrolo[3,4-c]pyridines by eliminating hydrogen sulfide. The reaction of thioacetamide and N-arylmaleimide in dioxane at boiling temperature with the portioned addition of N-arylmaleimide leads predominantly to the formation of pyrrolo[3,4-c]pyridines. The reaction of thioacetamide with N-alkylmaleimides under all the above conditions leads predominantly to the formation of the corresponding sulfides. The structure of the compounds obtained was characterized by a set of spectral analysis methods and X-ray diffraction (XRD) data.

A free and open-source solution for Rietveld refinement of XRD data from the CheMin instrument onboard the Mars rover Curiosity

The Rietveld refinement software Profex is an open-source and platform-independent solution for the processing of powder X-ray diffraction datasets. It is based on the BGMN refinement kernel and uses a description of the diffractometer configuration to determine the instrument-related peak profile. In this article we present a Profex configuration file for the Chemistry and Mineralogy (CheMin) X-ray diffractometer (XRD), which is on-board the Mars Science Laboratory rover Curiosity . For the past decade, Curiosity has been on a mission on Mars to find out whether the planet was once habitable for microbial life. The CheMin XRD determines the mineralogical phases and abundances of Martian soil and rocks in Gale Crater, Mars. Since its arrival on Mars in 2012, Curiosity has analyzed powdered soil and rock samples with the CheMin instrument and transmitting the raw XRD data acquired back to Earth. Adaptations of Profex to work seamlessly with CheMin XRD datasets involved creating a new configuration file for the CheMin instrument, as well as adding the Mars Mineral Compendium, a compilation of structural models specifically selected for the analysis of Mars sedimentary soil and rock samples, to Profex . Using example refinements, we demonstrate that this software solution is well suited for quantitative analysis of CheMin XRD datasets. • CheMin was sent to Mars on-board the Rover Curiosity to analyze Martian rock and soil samples by XRD. • Profex is a software for the processing of XRD datasets by Rietveld refinement. • We adapted Profex for the refinement of CheMin XRD datasets. • Successful phase identification and quantification with Profex was demonstrated. • Profex is open-source software and runs on all major operating systems.

Domain Auto Finder (DAFi) program: the analysis of single-crystal X-ray diffraction data from polycrystalline samples.

This paper presents the Domain Auto Finder (DAFi) program and its application to the analysis of single-crystal X-ray diffraction (SC-XRD) data from multiphase mixtures of microcrystalline solids and powders. Superposition of numerous reflections originating from a large number of single-crystal domains of the same and/or different (especially unknown) phases usually precludes the sorting of reflections coming from individual domains, making their automatic indexing impossible. The DAFi algorithm is designed to quickly find subsets of reflections from individual domains in a whole set of SC-XRD data. Further indexing of all found subsets can be easily performed using widely accessible crystallographic packages. As the algorithm neither requires a priori crystallographic information nor is limited by the number of phases or individual domains, DAFi is powerful software to be used for studies of multiphase polycrystalline and microcrystalline (powder) materials. The algorithm is validated by testing on X-ray diffraction data sets obtained from real samples: a multi-mineral basalt rock at ambient conditions and products of the chemical reaction of yttrium and nitro-gen in a laser-heated diamond anvil cell at 50 GPa. The high performance of the DAFi algorithm means it can be used for processing SC-XRD data online during experiments at synchrotron facilities.

Slow protein dynamics probed by time-resolved oscillation crystallography at room temperature.

The development of serial crystallography over the last decade at XFELs and synchrotrons has produced a renaissance in room-temperature macromolecular crystallography (RT-MX), and fostered many technical and methodological breakthroughs designed to study phenomena occurring in proteins on the picosecond-to-second timescale. However, there are components of protein dynamics that occur in much slower regimes, of which the study could readily benefit from state-of-the-art RT-MX. Here, the room-temperature structural study of the relaxation of a reaction intermediate at a synchrotron, exploiting a handful of single crystals, is described. The intermediate in question is formed in microseconds during the photoreaction of the LOV2 domain of phototropin 2 from Arabidopsis thaliana, which then decays in minutes. This work monitored its relaxation in the dark using a fast-readout EIGER X 4M detector to record several complete oscillation X-ray diffraction datasets, each of 1.2 s total exposure time, at different time points in the relaxation process. Coupled with in crystallo UV-Vis absorption spectroscopy, this RT-MX approach allowed the authors to follow the relaxation of the photoadduct, a thio-ether covalent bond between the chromophore and a cysteine residue. Unexpectedly, the return of the chromophore to its spectroscopic ground state is followed by medium-scale protein rearrangements that trigger a crystal phase transition and hinder the full recovery of the structural ground state of the protein. In addition to suggesting a hitherto unexpected role of a conserved tryptophan residue in the regulation of the photocycle of LOV2, this work provides a basis for performing routine time-resolved protein crystallography experiments at synchrotrons for phenomena occurring on the second-to-hour timescale.

Re-evaluation of protein neutron crystallography with and without X-ray/neutron joint refinement.

Protein neutron crystallography is a powerful technique to determine the positions of H atoms, providing crucial biochemical information such as the protonation states of catalytic groups and the geometry of hydrogen bonds. Recently, the crystal structure of a bacterial copper amine oxidase was determined by joint refinement using X-ray and neutron diffraction data sets at resolutions of 1.14 and 1.72 Å, respectively [Murakawa et al. (2020 ▸). Proc. Natl Acad. Sci. USA, 117, 10818-10824]. While joint refinement is effective for the determination of the accurate positions of heavy atoms on the basis of the electron density, the structural information on light atoms (hydrogen and deuterium) derived from the neutron diffraction data might be affected by the X-ray data. To unravel the information included in the neutron diffraction data, the structure determination was conducted again using only the neutron diffraction data at 1.72 Å resolution and the results were compared with those obtained in the previous study. Most H and D atoms were identified at essentially the same positions in both the neutron-only and the X-ray/neutron joint refinements. Nevertheless, neutron-only refinement was found to be less effective than joint refinement in providing very accurate heavy-atom coordinates that lead to significant improvement of the neutron scattering length density map, especially for the active-site cofactor. Consequently, it was confirmed that X-ray/neutron joint refinement is crucial for determination of the real chemical structure of the catalytic site of the enzyme.

Sequence Analysis and Preliminary X-ray Crystallographic Analysis of an Acetylesterase (LgEstI) from Lactococcus garvieae

A gene encoding LgEstI was cloned from a bacterial fish pathogen, Lactococcus garvieae. Sequence and bioinformatic analysis revealed that LgEstI is close to the acetyl esterase family and had maximum similarity to a hydrolase (UniProt: Q5UQ83) from Acanthamoeba polyphaga mimivirus (APMV). Here, we present the results of LgEstI overexpression and purification, and its preliminary X-ray crystallographic analysis. The wild-type LgEstI protein was overexpressed in Escherichia coli, and its enzymatic activity was tested using p-nitrophenyl of varying lengths. LgEstI protein exhibited higher esterase activity toward p-nitrophenyl acetate. To better understand the mechanism underlying LgEstI activity and subject it to protein engineering, we determined the high-resolution crystal structure of LgEstI. First, the wild-type LgEstI protein was crystallized in 0.1 M Tris-HCl buffer (pH 7.1), 0.2 M calcium acetate hydrate, and 19% (w/v) PEG 3000, and the native X-ray diffraction dataset was collected up to 2.0 Å resolution. The crystal structure was successfully determined using a molecular replacement method, and structure refinement and model building are underway. The upcoming complete structural information of LgEstI may elucidate the substrate-binding mechanism and provide novel strategies for subjecting LgEstI to protein engineering.

Decoding the shift-invariant data: applications for band-excitation scanning probe microscopy * *This manuscript has been authored by UT-Battelle, LLC, under Contract No. DE-AC0500OR22725 with the U.S. Department of Energy. The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a non-exclusive, paid-up, irrevocable, world-wide license to publish or reproduce

A shift-invariant variational autoencoder (shift-VAE) is developed as an unsupervised method for the analysis of spectral data in the presence of shifts along the parameter axis, disentangling the physically-relevant shifts from other latent variables. Using synthetic data sets, we show that the shift-VAE latent variables closely match the ground truth parameters. The shift VAE is extended towards the analysis of band-excitation piezoresponse force microscopy data, disentangling the resonance frequency shifts from the peak shape parameters in a model-free unsupervised manner. The extensions of this approach towards denoising of data and model-free dimensionality reduction in imaging and spectroscopic data are further demonstrated. This approach is universal and can also be extended to analysis of x-ray diffraction, photoluminescence, Raman spectra, and other data sets.

Deep learning for visualization and novelty detection in large X-ray diffraction datasets

We apply variational autoencoders (VAE) to X-ray diffraction (XRD) data analysis on both simulated and experimental thin-film data. We show that crystal structure representations learned by a VAE reveal latent information, such as the structural similarity of textured diffraction patterns. While other artificial intelligence (AI) agents are effective at classifying XRD data into known phases, a similarly conditioned VAE is uniquely effective at knowing what it doesn’t know: it can rapidly identify data outside the distribution it was trained on, such as novel phases and mixtures. These capabilities demonstrate that a VAE is a valuable AI agent for aiding materials discovery and understanding XRD measurements both ‘on-the-fly’ and during post hoc analysis.