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Creators/Authors contains: "Wu, Yuan"

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  1. Abstract The structures of natural RNAs remain poorly characterized and may hold numerous surprises1–4. Here we report three-dimensional structures of three large ornate bacterial RNAs using cryo-electron microscopy (cryo-EM). GOLLD (Giant, Ornate, Lake- and Lactobacillales-Derived), ROOL (Rumen-Originating, Ornate, Large) and OLE (Ornate Large Extremophilic) RNAs form homo-oligomeric complexes whose stoichiometries are retained at lower concentrations than measured in cells. OLE RNA forms a dimeric complex with long co-axial pipes spanning two monomers. Both GOLLD and ROOL form distinct RNA-only multimeric nanocages with diameters larger than the ribosome, each empty except for a disordered loop. Extensive intramolecular and intermolecular A-minor interactions, kissing loops, an unusual A–A helix and other interactions stabilize the three complexes. Sequence covariation analysis of these large RNAs reveals evolutionary conservation of intermolecular interactions, supporting the biological importance of large, ornate RNA quaternary structures that can assemble without any involvement of proteins. 
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  2. In this investigation, we explore the impact of the Nb–Al ratio on the microstructural and mechanical properties of high-entropy superalloys (HESAs), focusing on hierarchical microstructures. Utilizing a series of HESAs with varying Nb–Al ratios, our study employs advanced characterization techniques, including differential scanning calorimetry (DSC) for thermal analysis, electron probe micro-analyzer (EPMA) for compositional analysis for the design of a homogenization treatment at 1500 K/24 h. Transmission electron microscopy (TEM) reveals that the increasing Nb–Al ratio refines the γ' precipitates and influences the size and volume fraction of embedded hierarchical γ particles. ThermoCalc equilibrium phase analysis and Vegard's-law calculations reveal a minimal lattice misfit between these phases, highlighting the interplay between Nb–Al ratio and phase stability. The increasing Nb–Al ratio inhibits the formation of hierarchical γ particles. We observe an enhancement in hardness from 433 HV to 492 HV with an increasing Nb–Al ratio. This study provides valuable insights into the role of Nb and the Nb–Al ratio in HESAs with hierarchical microstructures, demonstrating its significant influence on γ particle formation within γ' precipitates and mechanical strength. The findings advance our understanding of alloy design and pave the way for developing advanced HESAs for high-temperature applications. 
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  3. Here, we study the homogenization behavior and microstructure of seven Ni-Al-Ti alloys with quaternary additions of γ forming elements 4Cr, 4Co, 4Ru, 4Mo, 4Hf, 4 W and 2Re. To design a homogenization treatment, the as-cast microstructure is analyzed revealing the diffusion distances x between dendrite cores and interdendritic regions. The temperatures for homogenization are determined using differential scanning calorimetry (DSC) and Thermo-Calc simulations, to be between 1150 and 1275 °C. The time to achieve homogenization is modelled based on the residual segregation index δ utilizing diffusion distance, homogenization temperature and diffusion data. Electron probe micro analyzer (EPMA) measurements show that our predictions match for the 4Cr, 4Co, 4Ru, 4 W and 2Re alloys while the 4Hf alloy shows insufficient homogenization. Transmission electron microscopy (TEM) reveals a two-phase γ/γ’ microstructure after 750 °C / 24 h, whereby the 4Co and 4Ru alloys form hierarchical microstructures. We observe γ plates in the 4Co alloy and γ spheres in the 4Ru alloy. Ru in the 4Ru alloy is involved in stabilizing the morphology of γ spheres. We provide a straightforward method for the design of homogenization treatments of Ni-based superalloys and demonstrate an alloy design pathway for tailoring the phase stability of hierarchical microstructures. 
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  4. ABSTRACT Accurate biomolecular structure prediction enables the prediction of mutational effects, the speculation of function based on predicted structural homology, the analysis of ligand binding modes, experimental model building, and many other applications. Such algorithms to predict essential functional and structural features remain out of reach for biomolecular complexes containing nucleic acids. Here, we report a quantitative and qualitative evaluation of nucleic acid structures for the CASP16 blind prediction challenge by 12 of the experimental groups who provided nucleic acid targets. Blind predictions accurately model secondary structure and some aspects of tertiary structure, including reasonable global folds for some complex RNAs; however, predictions often lack accuracy in the regions of highest functional importance. All models have inaccuracies in non‐canonical regions where, for example, the nucleic‐acid backbone bends, deviating from an A‐form helix geometry, or a base forms a non‐standard hydrogen bond (not a Watson‐Crick base pair). These bends and non‐canonical interactions are integral to forming functionally important regions such as RNA enzymatic active sites. Additionally, the modeling of conserved and functional interfaces between nucleic acids and ligands, proteins, or other nucleic acids remains poor. For some targets, the experimental structures may not represent the only structure the biomolecular complex occupies in solution or in its functional life cycle, posing a future challenge for the community. 
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  5. null (Ed.)