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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 289 records · Page 16
All sourcesNASA NTRSDOE OSTI
DOE OSTI2015

SU-C-213-01: 3D Printed Patient Specific Phantom Composed of Bone and Soft Tissue Substitute Plastics for Radiation Therapy

Purpose: 3D printed phantoms constructed of multiple tissue approximating materials could be useful in both clinical and research aspects of radiotherapy. This work describes a 3D printed phantom constructed with tissue substitute plastics for both bone and soft tissue; air cavities were included as well. Methods: 3D models of an anonymized nasopharynx patient were generated for air cavities, soft tissues, and bone, which were segmented by Hounsfield Unit (HU) thresholds. HU thresholds were chosen to define air-to-soft tissue boundaries of 0.65 g/cc and soft tissue-to-bone boundaries of 1.18 g/cc based on clinical HU to density tables. After evaluation of several composite plastics, a bone tissue substitute was identified as an acceptable material for typical radiotherapy x-ray energies, composed of iron and PLA plastic. PET plastic was determined to be an acceptable soft tissue substitute. 3D printing was performed on a consumer grade dual extrusion fused deposition model 3D printer. Results: MVCT scans of the 3D printed heterogeneous phantom were acquired. Rigid image registration of the patient and the 3D printed phantom scans was performed. The average physical density of the soft tissue and bone regions was 1.02 ± 0.08 g/cc and 1.39 ± 0.14 g/cc, respectively, for the patient kVCT scan. In the 3D printed phantom MVCT scan, the average density of the soft tissue and bone was 1.01 ± 0.09 g/cc and 1.44 ± 0.12 g/cc, respectively. Conclusion: A patient specific phantom, constructed of heterogeneous tissue substitute materials was constructed by 3D printing. MVCT of the 3D printed phantom showed realistic tissue densities were recreated by the 3D printing materials. Funding provided by intra-department grant by University of Minnesota Department of Radiation Oncology.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

A Monte Carlo model for 3D grain evolution during welding

Welding is one of the most wide-spread processes used in metal joining. However, there are currently no open-source software implementations for the simulation of microstructural evolution during a weld pass. Here we describe a Potts Monte Carlo based model implemented in the SPPARKS kinetic Monte Carlo computational framework. The model simulates melting, solidification and solid-state microstructural evolution of material in the fusion and heat-affected zones of a weld. The model does not simulate thermal behavior, but rather utilizes user input parameters to specify weld pool and heat-affect zone properties. Weld pool shapes are specified by Bezier curves, which allow for the specification of a wide range of pool shapes. Pool shapes can range from narrow and deep to wide and shallow representing different fluid flow conditions within the pool. Surrounding temperature gradients are calculated with the aide of a closest point projection algorithm. Furthermore, the model also allows simulation of pulsed power welding through time-dependent variation of the weld pool size. Example simulation results and comparisons with laboratory weld observations demonstrate microstructural variation with weld speed, pool shape, and pulsed-power.

36 MATERIALS SCIENCE↗
NASA NTRS1998

EOS Interdisciplinary Investigation: Observational and Modeling Studies of Radiative, Chemical, and Dynamical Interactions in the Earth's Atmosphere

A 3-dimensional model of atmospheric dynamics and photochemistry has been developed from the primitive equations in isentropic coordinates. The model extends from the upper troposphere through the middle atmosphere and is driven by observed dynamical and chemical structure in the troposphere. The model's formulation is entirely spectral: Horizontal structure is represented in terms of vector Hough functions, which explicitly partition the motion into its rotational and divergent components. This formulation enables the model's computational performance to be increased dramatically by filtering high-frequency gravity waves, which do not affect PV conservation. Vertical structure is represented in terms of eigenfunctions that follow from the primitive equations in isentropic coordinates. The model's fully spectral formulation enables scale-selective dissipation, necessary for numerical stability, to be applied at 6th order-in all 3 coordinate directions. This feature leaves all but the shortest vertical scales undamped and, consequently, allows potential vorticity and chemical tracers to be conserved quite accurately, distinctly better than in the model's layered counterpart. These dynamical features are complemented by a basic but fairly complete treatment of gas phase photochemistry, which accounts for some 48 chemical species, diurnally-varying SW absorption by O2 and O3, and LW cooling calculated via a detailed band calculation of radiative transfer. Driven by observed tropospheric structure, the 3D model reproduces observed structure in the middle atmosphere, inclusive of transport by the Brewer-Dobson circulation and accompanying chemical variations. Calculated residual motion is consistent with diabatic cooling rates, poleward transport, and descent in the polar night derived from satellite measurements of chemical tracers made from LIMS, SAGE, and UARS. The model also reproduces the observed structure of chemical species like O3, HNO3, and ClO. At the same time, it provides a respectable 3D simulation of the wintertime increase of midlatitude total ozone, as well as its geographical structure observed by Nimbus-7 TOMS. The 3D model has been used to explore the origin of diabatic upwelling in the tropical lower stratosphere, which has been related to planetary wave absorption in the winter- time stratosphere, as well as to influences from tropospheric convection at the tropical tropopause.

Salby, Murry L.↗
DOE OSTI2026

Structure–Property Relationships of Recycled Lithium-Ion Battery Cathodes: Microstructure Optimization Using Virtual Materials Testing

The increasing demand for sustainable battery technologies requires effective recycling strategies for end-of-life lithium-ion battery cathodes. In this study, virtual materials testing, a well-established framework for modeling conventionally manufactured NMC-based cathodes, is applied to partially recycled cathodes. To this end, virtual cathodes consisting of mixtures of pristine and recycled NMC particles are utilized to systematically analyze structure–property relationships depending on mixing ratios and different spatial arrangement strategies. For this purpose, a stochastic 3D model is developed that is capable of generating virtual cathodes with arbitrary volume fractions of active materials and mixing ratios of pristine and recycled NMC particles. Particularly, the stochastic 3D model can mimic the different size distributions of pristine and recycled particles that are observed in image data. Additionally, the model allows the structuring of pristine and recycled NMC either uniformly mixed or layer-wise arranged, mimicking single- and dual-layer cathodes. Subsequently, a systematic computational analysis is conducted to assess the influence of increasing active material ratios of recycled particles, ranging from 0 % to 100 %, while maintaining a constant overall active material volume fraction. The impact of particle mixing on cathode performance is evaluated by examining transport-relevant geometrical descriptors and effective properties, such as geodesic tortuosity, specific surface area, and tortuosity factor.

25 ENERGY STORAGE↗
DOE OSTI2020

3D CFD Model Validation Using Benchmark Data of 1/16th Scaled VHTR Upper Plenum and Development of Wall Heat-Transfer Correlation For Laminar Flow

With support from the U.S. Department of Energy-Office of Nuclear Energy’s (DOE-NE’s) Nuclear Energy Advanced Modeling and Simulation (NEAMS) program, an effort has been pursued to support high-temperature gas-cooled reactor (HTGR) technology development and its modeling and simulation needs. There is a particular need for advanced modeling and simulation tools to predict thermal-fluid behavior in the nuclear reactor primary system, especially in the core and the lower and upper plena, during safety-related transients. In this report, two main such activities are presented relevant to the HTGRs: (1) three-dimensional (3D) computational fluid dynamics (CFD) validation using benchmark data from the upper plenum of Texas A&M University’s 1/16th scaled very-high-temperature gas-cooled reactor (VHTR), and (2) development of wall heat-transfer correlation for laminar flow in a wall-heated pipe. The CFD tool validation exercises can be helpful to choose the models and CFD tools to simulate and design specific components of the HTRGs such as upper plenum where jet mixing is a complex phenomenon. In a loss of forced circulation event, the laminar flow can be observed during the development of natural circulation flow. This work includes the development and validation of heat transfer correlations for laminar flow using the Nek5000 CFD code due to limited available experimental data for laminar flow conditions to guide low-order models (1D). In this report, the flow characteristics of a single isothermal jet discharging into the upper plenum was investigated using the Nek5000 Large-Eddy Simulation (LES) CFD tool. Several numerical simulations were performed for various jet-discharged Reynolds numbers ranging from 3,413 to 12,819. A grid-independent study was performed. The numerical results of mean velocity, root-mean-square fluctuating velocity, and Reynolds stress were compared against the benchmark data. Good agreement was obtained between simulated and measured data for axial mean velocities, except near the upper plenum hemisphere. The maximum predicted errors for axial mean velocities at various normalized coolant channel diameter heights of 1, 5, and 10 are 1.56%, 1.88%, and 3.82%, respectively. In addition, the predicted root-mean-square fluctuating velocity and Reynolds stress are qualitatively in agreement with the experimental data. The Nek5000 code was used to develop wall-heat transfer correlation for laminar flow in a cylindrical tube. Several simulations were performed for various Reynolds flow and wall-heat fluxes. A new heat transfer correlation was developed using data from Nek5000 simulation results and regression functions in Matlab. The developed heat transfer correlation is valid for various Reynolds flows from 200 to 2000. The predicted R² value for model fit was 0.875, which ensures that 87.5% of the model data lies on the Nek5000 data. Moreover, a machine learning (ML) tool was used to train and test the Nek5000 data. A good fit of the ML-based model was observed with the test data.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
NASA NTRS1992

Adaptive wall technology for three-dimensional models at high subsonic speeds and aerofoil testing through the speed of sound

Adaptive wall research at the University of Southampton has been directed towards the development of testing techniques for use in nonporous test sections where two flexible walls are profiled in single curvature. This paper highlights the recent advances that have been made in the testing of 2D airfoils through the speed of sound and the testing of 3D models at high subsonic speeds. Techniques have been developed to accommodate the variety of flow regimes encountered in near sonic airfoil tests. The experimental evidence to date suggests that the new techniques coupled with established procedures allow airfoil data, free from top and bottom wall interference, to be gathered from adaptive flexible walled test sections throughout the entire subsonic, transonic and supersonic speed ranges. Techniques applicable to the testing of 3D models have evolved primarily from experience gained by testing sidewall mounted half-wings. Emphasis has been placed upon models with planforms similar to those of current transport wings. Techniques for high subsonic speeds have now been developed to the point where the residual levels of interference are low.

Lewis, M. C.↗
DOE OSTI2020

Risk-Informed MultiPphysics BestEestimate Plus Uncertainties (BEPU) Application Development of RELAP5-3D Perturbation Model

The United States nuclear industry is facing a strong challenge to ensure maximum safety while enhancing economic benefit. Safety is a key parameter to all aspects related to light water reactor (LWR) nuclear power plants (NPPs), especially cost savings. Since the goal is to extend the lifetimes of these NPPs, the traditional deterministic safety concept may not guarantee a current economic asset. The Light Water Reactor Sustainability (LWRS) Program has been promoting a wide range of research and development (R&D) in this field to maximize the safety, economics, and performance of these NPPs through improved scientific understanding. One of the best practices to achieve this goal is to identify and optimize safety margins, which can lead to cost reduction. To do this, under the LWRS framework, the Risk-Informed Systems Analysis (RISA) Pathway will focus on the optimization of safety margin and minimization of uncertainties to ensure both safety and economics at the highest level. The RISA Pathway will provide enhanced capabilities for analyzing and characterizing LWR systems performance by developing and demonstrating methods, tools, and data to enable risk-informed margins management (RIMM). The goals of the RISA Pathway are twofold: (1) deploy the risk-informed tools and methods that enable better representation of safety margins and factors that contribute to cost and safety; and (2) conduct advanced risk assessment applications with industry to support margin management strategies that enable more cost-effective plant operation. The tools and methods provided by the RISA Pathway will support effective margin management for both active and passive safety systems, structures, and components (SSC) of an NPP. The tools and methods used in the RISA Pathway should have high confidence and highest technical maturity for and implementation to industry at its current setting. They should also have a capability to support risk-informed decision making for both probabilistic and deterministic elements of safety. The RISA Pathway will, therefore, perform a comprehensive assessment of verification and validation (V&V) status of RISA Toolkit to enhance credibility RISA Toolkit which be used by industry. This report summarizes RELAP5-3D development activities for best estimated and uncertainty (BEPU) capability to support ongoing RISA Pathway pilot projects for risk informed uncertainty quantification applications. Work scope includes (1) development of initial perturbation model for selected closure laws and (2) testing of suitable probability distribution functions (PDF) for the selected correlations. Developed BEPU modules are tested with selected separate effect cases and compared with conventional thermal-hydraulics model.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
NASA NTRS1990

Block rotations, fault domains and crustal deformation in the western US

The aim of the project was to develop a 3D model of crustal deformation by distributed fault sets and to test the model results in the field. In the first part of the project, Nur's 2D model (1986) was generalized to 3D. In Nur's model the frictional strength of rocks and faults of a domain provides a tight constraint on the amount of rotation that a fault set can undergo during block rotation. Domains of fault sets are commonly found in regions where the deformation is distributed across a region. The interaction of each fault set causes the fault bounded blocks to rotate. The work that has been done towards quantifying the rotation of fault sets in a 3D stress field is briefly summarized. In the second part of the project, field studies were carried out in Israel, Nevada and China. These studies combined both paleomagnetic and structural information necessary to test the block rotation model results. In accordance with the model, field studies demonstrate that faults and attending fault bounded blocks slip and rotate away from the direction of maximum compression when deformation is distributed across fault sets. Slip and rotation of fault sets may continue as long as the earth's crustal strength is not exceeded. More optimally oriented faults must form, for subsequent deformation to occur. Eventually the block rotation mechanism may create a complex pattern of intersecting generations of faults.

Nur, Amos↗
DOE OSTI2022

Assessment of the sea surface temperature diurnal cycle in CNRM-CM6-1 based on its 1D coupled configuration

A single-column version of the CNRM-CM6-1 global climate model has been developed to ease development and validation of the boundary layer physics and air–sea coupling in a simplified environment. This framework is then used to assess the ability of the coupled model to represent the sea surface temperature (SST) diurnal cycle. To this aim, the atmospheric–ocean single-column model (AOSCM), called CNRM-CM6-1D, is implemented in a case study derived from the CINDY2011/DYNAMO campaign over the Indian Ocean, where large diurnal SST variabilities have been well documented. Comparing the AOSCM and its uncoupled components (atmospheric SCM and oceanic SCM, called OSCM) highlights the fact that the impact of coupling in the atmosphere results from both the possibility to take into account the diurnal variability of SST, which is not usually available in forcing products, and the change in mean state SST as simulated by the OSCM, with the ocean mean state not being heavily impacted by the coupling. This suggests that coupling feedbacks in the 3D model do not arise from the coupling of ocean and atmosphere vertical column physics but are more due to the large-scale dynamics resolved by the 3D model. Additionally, a sub-daily coupling frequency is needed to represent the SST diurnal variability, but the choice of the coupling time step between 15 min and 3 h does not impact the diurnal temperature range simulated much. The main drawback of a 3 h coupling is delaying the SST diurnal cycle by 5 h in asynchronous coupled models. Overall, the diurnal SST variability is reasonably well represented in CNRM-CM6-1 with a 1 h coupling time step and the upper-ocean model resolution of 1 m. This framework is shown to be a very valuable tool to develop and validate the boundary layer physics and the coupling interface. It highlights the interest to develop other atmosphere–ocean coupling case studies.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2015

LANL Robotic Vessel Scanning

Los Alamos National Laboratory in J-1 DARHT Operations Group uses 6ft spherical vessels to contain hazardous materials produced in a hydrodynamic experiment. These contaminated vessels must be analyzed by means of a worker entering the vessel to locate, measure, and document every penetration mark on the vessel. If the worker can be replaced by a highly automated robotic system with a high precision scanner, it will eliminate the risks to the worker and provide management with an accurate 3D model of the vessel presenting the existing damage with the flexibility to manipulate the model for better and more in-depth assessment.The project was successful in meeting the primary goal of installing an automated system which scanned a 6ft vessel with an elapsed time of 45 minutes. This robotic system reduces the total time for the original scope of work by 75 minutes and results in excellent data accumulation and transmission to the 3D model imaging program.

Computer Hardware↗
NASA NTRS1992

Numerical models of mantle convection

An overview of numerical methods describing the structure and dynamics of the mantle is presented with attention given to novel 3D modeling techniques. The paper reviews 3D spherical and Cartesian models for constant viscosity emphasizing the assumptions regarding style of convection, time dependence, and implications for the mantle. Similarly treated are 3D Cartesian models with temperature-dependent viscosities, and briefly examined are models that are based on compressibility, nonlinear viscosity, or plates. Extensive illustrations are presented detailing: (1) temperature variations from models of 3D thermal convection in spherical shells; (2) thermal anomalies in equatorial cross sections; and (3) temperature variations in a spherical shell heated from within. The discussion relates the numerical results of the models with real mantle-convection events, and the simulations are shown to yield increasingly realistic representations of material behavior.

Schubert, G.↗
DOE OSTI2019

Computational simulation of a 100 kW dual circulating fluidized bed reactor processing coal by chemical looping with oxygen uncoupling

Chemical looping with oxygen uncoupling (CLOU) is a promising carbon capture technology that utilizes two interconnected fluidized-bed reactors to separate oxygen from air using a metal oxide, and then to use that oxygen to combust fuel in a nitrogen-free environment. CLOU is particularly well suited for solid fuels such as coal since released O 2 will readily combust with solid char. This study presents simulations of the University of Utah's dual fluidized bed chemical looping process development unit (PDU) operating as a CLOU system at 100 kW th , using CPFD Software's Barracuda-VR™ CFD modeling program. A full 3D model of the PDU was used including both reactors, as well as loop seals and cyclone separators. Hydrodynamic settings and the drag model are based on previous cold-flow validation experiments. Mechanisms describing CLOU reaction kinetics for cuprous oxide oxidation in the air reactor and cupric oxide reduction in the fuel reactor were adapted from previously completed experimental work. Coal char kinetics were based on the carbon-hydrogen-nitrogen-oxygen-sulfur, CHNOS, method. Submodels for devolatilization, gasification, and homogenous gas-phase reactions used relationships from the literature. Results predict volatile burnout almost immediately, though coal combustion continues into the upper portions of the fuel reactor and cyclone. Lastly, nitrogen gas leakage into the fuel reactor is shown to be mostly carryover from the air reactor

42 ENGINEERING↗
DOE OSTI2022

Linear Seismic Source Equivalents in 3D Nonlinear Models: Effects of Embedded Small-Scale, Near-Source Structures

Gaining a proper understanding of how Earth structure and other near-source properties affect estimates of explosion yield is important to the nonproliferation mission. The yields of explosion sources are often based on seismic moment or waveform amplitudes. Quantifying how the seismic waveforms or estimates of the source characteristics derived from those waveforms are influenced by natural or man-made structures within the near-source region, where the wavefield behaves nonlinearly, is required to understand the full range of uncertainty in those yield estimates. We simulate tamped chemical explosions using a nonlinear, shock physics code and couple the ground motions beyond the elastic radius to a linear elastic, full waveform seismic simulation algorithm through 3D media. In order to isolate the effects of simple small-scale 3D structures on the seismic wavefield and linear seismic source estimates, we embed spheres and cylinders close to the fully- tamped source location within an otherwise homogenous half-space. The 3 m diameters spheres, given their small size compared to the predominate wavelengths investigated, not surprisingly are virtually invisible with only negligible perturbations to the far-field waveforms and resultant seismic source time functions. Similarly, the 11 m diameter basalt sphere has a larger, but still relatively minor impact on the wavefield. However, the 11 m diameter air-filled sphere has the largest impact on both waveforms and the estimated seismic moment of any of the investigated cases with a reduction of ~25% compared to the tamped moment. This significant reduction is likely due in large part to the cavity collapsing from the shock instead of being solely due to diffraction effects . Although the cylinders have the same diameters as the 3 m spheres, their length of interaction with the wavefield produces noticeable changes to the seismic waveforms and estimated source terms with reductions in the peak seismic moment on the order of 10%. Both the cylinders and 11 m diameter spheres generate strong shear waves that appear to emanate from body force sources.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗
DOE OSTI2014

A region-appearance-based adaptive variational model for 3D liver segmentation

Purpose: Liver segmentation from computed tomography images is a challenging task owing to pixel intensity overlapping, ambiguous edges, and complex backgrounds. The authors address this problem with a novel active surface scheme, which minimizes an energy functional combining both edge- and region-based information. Methods: In this semiautomatic method, the evolving surface is principally attracted to strong edges but is facilitated by the region-based information where edge information is missing. As avoiding oversegmentation is the primary challenge, the authors take into account multiple features and appearance context information. Discriminative cues, such as multilayer consecutiveness and local organ deformation are also implicitly incorporated. Case-specific intensity and appearance constraints are included to cope with the typically large appearance variations over multiple images. Spatially adaptive balancing weights are employed to handle the nonuniformity of image features. Results: Comparisons and validations on difficult cases showed that the authors’ model can effectively discriminate the liver from adhering background tissues. Boundaries weak in gradient or with no local evidence (e.g., small edge gaps or parts with similar intensity to the background) were delineated without additional user constraint. With an average surface distance of 0.9 mm and an average volume overlap of 93.9% on the MICCAI data set, the authors’ model outperformed most state-of-the-art methods. Validations on eight volumes with different initial conditions had segmentation score variances mostly less than unity. Conclusions: The proposed model can efficiently delineate ambiguous liver edges from complex tissue backgrounds with reproducibility. Quantitative validations and comparative results demonstrate the accuracy and efficacy of the model.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2022

Toroidal modeling of 3D perturbations generated by current filaments in scrape-off layer in tokamak with biased divertor targets

The divertor biasing technique offers a promising alternative to control the edge localized mode (ELM) as well as the divertor heat load in tokamaks, as compared to the resonant magnetic perturbation (RMP) generated by magnetic coils. The linear resistive MHD code MARS-F (Liu et al 2000 Phys. Plasmas 7 3681) is employed to study the plasma response to the n = 2 (n is the toroidal mode number) field perturbation in HL-2A, produced by the divertor biasing current filaments flowing in the scrape-off layer region. The response field due to biasing currents is compared with the RMP field utilized for ELM control in HL-2A. The strength of the radial resonant field perturbation, produced by the biasing currents of 100 A level, is found to be comparable with RMP generated by several kA of ELM control coil currents for the reference plasma. The plasma normal displacement near the X-point and the associated neoclassical toroidal viscosity torque are also computed to be similar between these two techniques. The modeling results thus strongly suggest that the biasing technique can be applied to control ELMs. Moreover, the biasing currents produce field perturbations, including the plasma response, that are localized more near the plasma edge (compared to the RMP counterpart), thus reducing the chance of mode locking associated with core perturbations. Particle orbit tracing also reveals that the biasing current produced magnetic perturbation tends to widen the heat deposition region and induce the strike point splitting of the ion saturation flow on the outer divertor surface, consistent with experimental observations in HL-2A. These toroidal modeling results confirm the possibility of ELM control and plasma exhaust solution by the divertor biasing technique.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2016

An assessment of coupling algorithms for nuclear reactor core physics simulations

This paper evaluates the performance of multiphysics coupling algorithms applied to a light water nuclear reactor core simulation. The simulation couples the k-eigenvalue form of the neutron transport equation with heat conduction and subchannel flow equations. We compare Picard iteration (block Gauss–Seidel) to Anderson acceleration and multiple variants of preconditioned Jacobian-free Newton–Krylov (JFNK). The performance of the methods are evaluated over a range of energy group structures and core power levels. A novel physics-based approximation to a Jacobian-vector product has been developed to mitigate the impact of expensive on-line cross section processing steps. Numerical simulations demonstrating the efficiency of JFNK and Anderson acceleration relative to standard Picard iteration are performed on a 3D model of a nuclear fuel assembly. Both criticality (k-eigenvalue) and critical boron search problems are considered.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2014

Electron microscopy and in vitro deneddylation reveal similar architectures and biochemistry of isolated human and Flag-mouse COP9 signalosome complexes

Highlights: • Deneddylation rates of human erythrocyte and mouse fibroblast CSN are very similar. • 3D models of native human and mouse CSN reveal common architectures. • The cryo-structure of native mammalian CSN shows a horseshoe subunit arrangement. - Abstract: The COP9 signalosome (CSN) is a regulator of the ubiquitin (Ub) proteasome system (UPS). In the UPS, proteins are Ub-labeled for degradation by Ub ligases conferring substrate specificity. The CSN controls a large family of Ub ligases called cullin-RING ligases (CRLs), which ubiquitinate cell cycle regulators, transcription factors and DNA damage response proteins. The CSN possesses structural similarities with the 26S proteasome Lid complex and the translation initiation complex 3 (eIF3) indicating similar ancestry and function. Initial structures were obtained 14 years ago by 2D electron microscopy (EM). Recently, first 3D molecular models of the CSN were created on the basis of negative-stain EM and single-particle analysis, mostly with recombinant complexes. Here, we compare deneddylating activity and structural features of CSN complexes purified in an elaborate procedure from human erythrocytes and efficiently pulled down from mouse Flag-CSN2 B8 fibroblasts. In an in vitro deneddylation assay both the human and the mouse CSN complexes deneddylated Nedd8-Cul1 with comparable rates. 3D structural models of the erythrocyte CSN as well as of the mouse Flag-CSN were generated by negative stain EM and by cryo-EM. Both complexes show a central U-shaped segment from which several arms emanate. This structure, called the horseshoe, is formed by the PCI domain subunits. CSN5 and CSN6 point away from the horseshoe. Compared to 3D models of negatively stained CSN complexes, densities assigned to CSN2 and CSN4 are better defined in the cryo-map. Because biochemical and structural results obtained with CSN complexes isolated from human erythrocytes and purified by Flag-CSN pulldown from mouse B8 fibroblasts are very similar, Flag-CSN pulldowns are a proper alternative to CSN preparation from erythrocytes.

60 APPLIED LIFE SCIENCES↗