The advent of a new generation of electron microscopes and direct electron detectors has realized the potential of single particle cryo-electron microscopy (cryo-EM) as a technique to generate high-resolution structures. Calculating these structures requires high performance computing clusters, a resource that may be limiting to many likely cryo-EM users. To address this limitation and facilitate the spread of cryo-EM, we developed a publicly available 'off-the-shelf' computing environment on Amazon's elastic cloud computing infrastructure. This environment provides users with single particle cryo-EM software packages and the ability to create computing clusters with 16 to 480+ CPUs. We tested our computing environment using a publicly available 80S yeast ribosome dataset and estimate that laboratories could determine high-resolution cryo-EM structures for $50 to $1,500 per structure within a timeframe comparable to local clusters. Our analysis shows that Amazon's cloud computing environment may offer a viable computing environment for cryo-EM.

Cryo-Electron Microscopy Service Market Analysis The Cryo-Electron Microscopy (Cryo-EM) Service market is experiencing robust growth, driven by its increasing adoption in pharmaceutical research, academic institutions, and the biotechnology industry. The market was valued at $XXX million in 2025 and is projected to reach $XXX million by 2033, exhibiting a CAGR of XX% during the forecast period. This growth is attributed to factors such as the rising demand for atomic-level structural information of biological macromolecules, advancements in cryo-EM technology, and government initiatives supporting biomedical research. Key industry trends include the adoption of AI-powered software for data analysis, the development of high-throughput workflows, and the emergence of cloud-based platforms for data storage and sharing. The market is segmented based on application (pharmaceutical research, structural biology, cell biology, and materials science) and type (transmission electron microscopy and scanning electron microscopy). Major players in the Cryo-EM Service market include Charles River Laboratories, NovAliX, and Thermo Fisher Scientific. The North American and European regions are anticipated to lead the market, followed by Asia Pacific and the Rest of the World.

Cryo-electron microscopy (cryo-EM) is a vital structural biology tool that enables the determination of three-dimensional structures of large biological macromolecules, macromolecular complexes, and cell components of biomedical interest, which bridges the gap of complementary structural biology tools such as X-ray crystallography and nuclear magnetic resonance spectroscopy (NMR). The resolution of single-particle cryo-EM has dramatically improved in the last couple of years and cryo-EM is now an essential technique for structural biology research. When operating in "molecular movie mode" the Titan Krios cryo-EM with Falcon II direct electron detector will produce major data volumes, generating terabytes of images per day. The data produced will be a significant asset to Australian and international researchers and will permit the determination of structures of large complex proteins that resist characterization through approaches such as X-ray crystallography.

The data storage made available through this proposal will allow researchers to more easily capture, share and publish images produced using the high-end microscopes of the Clive and Vera Ramaciotti Centre for Structural Cryo-Electron Microscopy. More broadly, this undertaking is important to support Australian investment in characterization, providing the missing fabric to collect, collate, and collaborate over data. It will form the basis for a sophisticated workflow, developed under NeCTAR’s Characterisation Virtual Laboratory, that includes significant Australian research infrastructure like the NeCTAR Cloud, MASSIVE, RDSI and VicNode.

This Collection will make imaging data from research grants totalling over $100M and instrument grants totalling more than $7M accessible to researchers and provide a mechanism to make the primary research data underlying published research broadly available. This includes data produced by the TitanTM Krios cryo TEM at the Clive and Vera Ramaciotti Centre for Structural Cryo-Electron Microscopy (Monash, in collaboration with WEHI, La Trobe University, the University of Melbourne, Burnet Institute and the Peter MacCallum Cancer Centre). This collection will underpin the $27.9M ARC Centre of Excellence in Advanced Molecular Imaging, which includes collaborators from Monash University, UNSW, UQ, The University of Melbourne, La Trobe University, Australian Synchrotron, University of Warwick, ANSTO, Deutsches Elektronen-Synchrotron, Leica Microsystems Pty Ltd and Carl Zeiss Pty Ltd.

Cryo-electron microscopy (cryo-EM) is a powerful technique for determining the structures of biological macromolecular complexes. Picking single-protein particles from cryo-EM micrographs is a crucial step in reconstructing protein structures. However, the widely used template-based particle picking process is labor-intensive and time-consuming. Though machine learning and artificial intelligence (AI) based particle picking can potentially automate the process, its development is hindered by lack of large, high-quality labelled training data. To address this bottleneck, we present CryoPPP, a large, diverse, expert-curated cryo-EM image dataset for protein particle picking and analysis. It consists of labelled cryo-EM micrographs (images) of 34 representative protein datasets selected from the Electron Microscopy Public Image Archive (EMPIAR). The dataset is 2.6 terabytes and includes 9,893 high-resolution micrographs with labelled protein particle coordinates. The labelling process was rigorously validated through 2D particle class validation and 3D density map validation with the gold standard. The dataset is expected to greatly facilitate the development of both AI and classical methods for automated cryo-EM protein particle picking.

The Cryo-Electron Microscope (Cryo-EM) market is experiencing robust growth, projected to reach $394.2 million in 2025 and maintain a Compound Annual Growth Rate (CAGR) of 5.5% from 2025 to 2033. This expansion is fueled by several key factors. Advancements in cryo-EM technology, particularly in image processing and automation, are significantly improving resolution and data acquisition speed, making the technology more accessible and efficient for researchers across diverse fields. The increasing demand for high-resolution structural biology data to accelerate drug discovery and development is a major driver, alongside growing applications in materials science and nanotechnology. Furthermore, the rising adoption of cryo-EM in academic research institutions and pharmaceutical companies, coupled with increased funding for scientific research, is further boosting market growth. The competitive landscape features key players like Thermo Fisher Scientific, JEOL, Hitachi High-Tech, and TESCAN, each vying for market share through technological innovations, strategic partnerships, and expanding service offerings. While challenges such as the high cost of equipment and specialized expertise required for operation remain, the overall market outlook is positive. Continued technological breakthroughs and the expanding scope of cryo-EM applications across diverse scientific domains are expected to fuel sustained market growth over the forecast period. The market's maturity and steady growth trajectory suggest a promising future for Cryo-EM technology, underpinned by its critical role in advancing scientific understanding and technological progress.

Each tar file contains the raw files in HDF5 format, together with the XDS.INP file used for data integration.

NB: The meta-data in the HDF5 files have no meaning, please refer to the respective XDS.INP file for respective information.

Files and metadata associated with the EMDataBank/Unified Data Resource for 3DEM 2015/2016 Models Challenge hosted at challenges.emdatabank.org are deposited.

All members of the Scientific Community--at all levels of experience--were invited to participate as Challengers, and/or as Assessors.

Eight recently determined target structures were selected for the challenge. All of the maps were archived in the EM Data Bank (EMDB; http://emdatabank.org).

In total 16 Challengers created 106 models and uploaded their results with associated details. In the zip files, each entry is represented in a folder containing the original deposition upload (deposited_EM.pdb), initial processing at RCSB/Rutgers (deposited_EM_edited.pdb, maxit.cif, maxit.cif.pdb) and final model version evaluated (model-compare.pdb) at UC Davis (http://model-compare.emdatabank.org).

This model challenge was one of two community-wide challenges sponsored by EMDataBank in 2015/2016 to critically evaluate 3DEM methods that are coming into use, with the ultimate goal of developing validation criteria associated with every 3DEM map and map-derived model.

The global biological cry-electron microscopy (cryo-EM) market is experiencing robust growth, driven by advancements in technology, increasing research funding in life sciences, and a rising demand for high-resolution imaging in structural biology. The market's expansion is fueled by the cryo-EM's ability to visualize biological macromolecules at near-atomic resolution, providing invaluable insights into their structure and function. This technology is revolutionizing fields like drug discovery, disease research, and materials science. While precise market size figures were not provided, based on industry reports and similar technology markets, we can reasonably estimate the 2025 market size to be approximately $500 million. Considering a conservative Compound Annual Growth Rate (CAGR) of 15% (reflecting market maturation and potential for technological saturation), the market is projected to reach approximately $1.2 billion by 2033. Key market segments include 120kV, 200kV, and 300kV cryo-EM systems, with the higher-voltage systems driving premium market value due to superior resolution capabilities. Applications span biological research, medical diagnostics, and other emerging fields, showcasing the diverse potential of this technology. Major players like Thermo Fisher Scientific and Direct Electron are actively shaping the market through innovation and competitive pricing. The growth of the cryo-EM market faces some challenges, including the high cost of instrumentation and maintenance, the requirement for specialized expertise in operation and data analysis, and the availability of skilled researchers. However, the ongoing development of user-friendly software, automated data acquisition workflows, and the increasing affordability of cryo-EM systems are expected to mitigate some of these restraints. Geographical segmentation reveals strong market presence in North America and Europe, driven by established research infrastructure and substantial funding. However, developing regions in Asia-Pacific are emerging as significant growth markets, fueled by rising investments in research and development and increasing collaborations between academic and industrial players. The overall trajectory suggests a strong and sustained growth for the biological cryo-electron microscopy market over the next decade, driven by scientific advancement, technological innovation, and broad-reaching application across various sectors.

The Cryogenic Electron Microscopy (Cryo-EM) market is experiencing robust growth, projected to reach $394.1 million in 2025 and maintain a Compound Annual Growth Rate (CAGR) of 3.3% from 2025 to 2033. This growth is driven by several key factors. Advancements in Cryo-EM technology, such as improved detectors and software, are leading to higher resolution images and faster data acquisition. This increased efficiency and accuracy are making Cryo-EM a more attractive and accessible tool for researchers across various fields, including structural biology, materials science, and nanotechnology. Furthermore, the rising demand for understanding complex biological structures at the atomic level, coupled with increasing research funding in life sciences, fuels market expansion. The major players, including Thermo Fisher Scientific, JEOL, and Hitachi, are continually investing in R&D to enhance their product offerings, further stimulating market competition and innovation. The market's segmentation, although not specified, likely includes instruments, consumables, services, and software, each contributing to the overall growth. The projected market value beyond 2025 is based on the sustained CAGR of 3.3%. While specific regional breakdowns are absent, it's reasonable to anticipate that North America and Europe will initially dominate the market due to the established presence of key players and robust research infrastructure. However, the Asia-Pacific region is expected to show significant growth over the forecast period due to increasing investment in scientific research and development within the region. Constraints on market growth might include the high cost of Cryo-EM equipment and the specialized expertise required for its operation and data analysis. Nevertheless, ongoing technological advancements and the increasing accessibility of Cryo-EM techniques are likely to mitigate these limitations.

This archive contains a synthetic dataset used for validating DeepHEMNMA method and the validation results. DeepHEMNMA is a deep learning extension of HEMNMA approach for analyzing continuous conformational variability of biomolecular complexes in cryo electron (cryo-EM) microscopy single particle images. We provide a training set of 20,000 images and an inference set of 50,000 images. The training images were used (1) to estimate the conformational and rigid-body parameters with HEMNMA and (2) to train the neural network using the parameters previously estimated with HEMNMA (the file with the HEMNMA-estimated parameters is provided). The inference images were used to infer the parameters with the trained neural network. Also, we provide (1) the input PDB structure, its normal modes, and the conformational and rigid-body parameters used to synthesize the 20,000 training images (ground-truth parameters) and (2) the conformational and rigid-body parameters inferred from the set of 50,000 inference images.

The DeepHEMNMA method and the method for synthesizing images have been fully described in the following article: "Hamitouche I and Jonic S (2022), DeepHEMNMA: ResNet-based hybrid analysis of continuous conformational heterogeneity in cryo-EM single particle images. Front Mol Biosci 9, 965645. https://doi.org/10.3389/fmolb.2022.965645 (in press)". Additionally, this article describes a test of DeepHEMNMA using one experimental cryo-EM dataset (available in EMPIAR database under the accession code EMPIAR-10016).

This repository contains the EMDB ID list used by CryoFM for training models and testing model performance. The training set includes 3447 IDs, and the test set includes 32 IDs.

The Cryo-EM market is experiencing steady growth, projected to reach $394.1 million in 2025 and maintain a Compound Annual Growth Rate (CAGR) of 3.3% from 2025 to 2033. This growth is driven by several key factors. Advancements in cryo-electron microscopy technology are leading to higher resolution images and improved data analysis capabilities, enabling researchers to visualize biological macromolecules with unprecedented detail. The increasing adoption of cryo-EM in various fields, including structural biology, drug discovery, and materials science, is further fueling market expansion. The technique's ability to image large and complex biomolecules without the need for crystallization makes it a powerful tool for understanding biological processes at a molecular level, driving demand from academic institutions, pharmaceutical companies, and biotechnology firms. Competition among key players like Thermo Fisher Scientific, JEOL, and Hitachi is fostering innovation and driving down costs, making the technology more accessible to a broader range of users. The continued development of user-friendly software and automation tools will also contribute to market growth in the coming years. However, certain challenges persist. The high initial investment cost associated with purchasing and maintaining cryo-EM equipment can limit its adoption by smaller research labs and institutions with limited budgets. Furthermore, specialized expertise is required to operate and analyze data from these sophisticated instruments, necessitating investment in training and skilled personnel. Despite these hurdles, the transformative potential of cryo-EM in various scientific disciplines ensures that the market will continue to expand steadily throughout the forecast period, driven by ongoing technological advancements and the increasing recognition of its unparalleled capabilities in structural biology and beyond.

Data item of the type ? from the database pdb with accession 1gw8 and name quasi-atomic resolution model of bacteriophage PRD1 sus607 mutant, obtained by combined cryo-EM and X-ray crystallography.

The global semi-automatic cryo-electron microscope (cryo-EM) market is experiencing robust growth, driven by advancements in imaging resolution and the increasing adoption of cryo-EM in diverse scientific fields. The market, estimated at $500 million in 2025, is projected to expand significantly over the forecast period (2025-2033), fueled by a Compound Annual Growth Rate (CAGR) of 15%. This growth is primarily attributed to the rising demand for high-resolution structural analysis in biological sciences, particularly for studying macromolecular complexes like proteins and viruses. Material science applications are also contributing to market expansion, with cryo-EM providing crucial insights into material structures at the nanoscale. The market is segmented by microscope type (300kV, 200kV, and 120kV cryo-EM) and application (biological science, material science, and others). The 300kV cryo-EM segment holds a significant market share due to its superior resolution capabilities, enabling researchers to visualize intricate details of complex biological structures. Key players like Thermo Fisher Scientific, JEOL, and Hitachi are driving innovation through technological advancements and strategic partnerships, further fueling market expansion. Geographical distribution reveals a strong presence in North America and Europe, representing the largest market shares due to established research infrastructure and substantial funding for scientific research. However, significant growth opportunities exist in the Asia-Pacific region, driven by increasing research investment and the establishment of advanced research facilities in countries like China, India, and Japan. While the high cost of equipment and specialized expertise represent market restraints, ongoing technological advancements that enhance accessibility and affordability are mitigating these challenges. Continued investments in research and development, coupled with increasing collaborations between academia and industry, are poised to propel the semi-automatic cryo-EM market toward continued expansion and broader accessibility within the scientific community.

This deposit in the Research Collaboratory for Structural Bioinformatics Protein Data Base (PDB) includes cryogenic electron microscopy data identifying the cryo-EM structure of the NLRP1-CARD filament. The main summary display for this entry includes information on the experimental method, validation and macromolecules in the deposit, as well as entry history and funding information. Data is provided for download as FASTA sequence format, the Protein Data Bases own PDB format, crystallographic information file (.cif), XML, the EM map, as well as the full validation file in either PDF or XML formats. Additionally, the PDB provides embedded visualization software to display a 3D view of the protein: PDB's Mol* viewer, NGL viewer, and JSmol. PDB provides protein family and gene product annotations, additional details about the experiment parameters, a Protein Feature Viewer (in the Sequence tab) which displays all available features and alignments of known polymer instances, and a genome view which provides graphical summaries of the correspondences between PDB Entity sequences and genomes.

The associated EMPIAR Image Set, linked here, includes the 2D tiff images use to develop the 3D modeling.

Protein-Protein, Genetic, and Chemical Interactions for Schoebel S (2017):Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3. curated by BioGRID (https://thebiogrid.org); ABSTRACT: Misfolded endoplasmic reticulum (ER) proteins are retro-translocated through the membrane into the cytosol, where they are poly-ubiquitinated, extracted from the ER membrane, and degraded by the proteasome(1-4), a pathway termed ER-associated protein degradation (ERAD). Proteins with misfolded domains in the ER lumen or membrane are discarded through the ERAD-L and -M pathways, respectively. In S. cerevisiae, both pathways require the ubiquitin ligase Hrd1, a multi-spanning membrane protein with a cytosolic RING finger domain(5,6). Hrd1 is the crucial membrane component for retro-translocation(7,8), but whether it forms a protein-conducting channel is unclear. Here, we report a cryo-electron microscopy (cryo-EM) structure of S. cerevisiae Hrd1 in complex with its ER luminal binding partner Hrd3. Hrd1 forms a dimer within the membrane with one or two Hrd3 molecules associated at its luminal side. Each Hrd1 molecule has eight trans-membrane segments, five of which form an aqueous cavity extending from the cytosol almost to the ER lumen, while a segment of the neighboring Hrd1 molecule forms a lateral seal. The aqueous cavity and lateral gate are reminiscent of features in protein-conducting conduits that facilitate polypeptide movement in the opposite direction, that is, from the cytosol into or across membranes(9-11). Our results suggest that Hrd1 forms a retro-translocation channel for the movement of misfolded polypeptides through the ER membrane.

Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications.

Cryo-electron microscopy image reconstruction data.

Cryo-Electron Microscopy Market Outlook

The global cryo-electron microscopy (Cryo-EM) market size was valued at approximately USD 1.2 billion in 2023 and is projected to reach USD 3.2 billion by 2032, growing at a compound annual growth rate (CAGR) of 11.2% during the forecast period. This impressive growth trajectory is driven by numerous factors, including technological advancements in microscopy, increasing demand for high-resolution imaging in scientific research, and the growing prevalence of chronic diseases which necessitates advanced drug discovery processes.

One of the primary growth factors for the cryo-electron microscopy market is the rapid technological advancements that have significantly improved the resolution and efficiency of imaging processes. Innovations such as direct electron detectors and automated sample preparation techniques have revolutionized the field, allowing for more precise and detailed imaging at the molecular level. This has expanded the application of Cryo-EM in various scientific fields, thereby boosting market growth.

Another crucial driver is the increasing demand for cryo-electron microscopy in structural biology. Researchers are increasingly relying on Cryo-EM to study the complex structures of proteins and other biomolecules at near-atomic resolution. This has critical implications for understanding the mechanisms of diseases and developing targeted therapies. As a result, significant investments are being made in research infrastructure and Cryo-EM facilities, further propelling market expansion.

The growing prevalence of chronic and infectious diseases is also a significant growth factor for the Cryo-EM market. As the global burden of diseases such as cancer, Alzheimer's, and viral infections continues to rise, there is an urgent need for advanced diagnostic and therapeutic tools. Cryo-EM provides valuable insights into the molecular basis of these diseases, facilitating the development of novel treatments and vaccines. This has led to increased adoption of Cryo-EM in medical research and pharmaceutical industries.

From a regional perspective, North America dominates the cryo-electron microscopy market, driven by substantial investments in research and development, a robust healthcare infrastructure, and the presence of leading market players. However, the Asia Pacific region is expected to witness the highest growth rate, owing to increasing government funding for scientific research, rising healthcare expenditure, and growing collaborations between academic institutions and industry players. These factors are creating a favorable environment for the adoption and expansion of Cryo-EM technologies in the region.

Product Type Analysis

The cryo-electron microscopy market is segmented into instruments, software, and services. Instruments form the backbone of Cryo-EM technology, encompassing electron microscopes, sample preparation equipment, and detectors. The segment is expected to hold the largest market share due to the high cost of electron microscopes and the continuous advancements in instrument technology. As researchers demand higher resolution and more efficient imaging, manufacturers are investing heavily in developing state-of-the-art instruments to meet these needs.

Software solutions play a crucial role in the Cryo-EM workflow, enabling the processing and analysis of complex data generated by electron microscopes. As the resolution and complexity of imaging increase, so does the need for sophisticated software that can handle large datasets, perform detailed analyses, and provide accurate 3D reconstructions. This segment is witnessing robust growth, driven by continuous advancements in computational algorithms and machine learning techniques that enhance the capabilities of Cryo-EM.

Services encompass a range of offerings, including maintenance, installation, training, and consulting services, which are essential for the optimal functioning and utilization of Cryo-EM instruments. As the adoption of Cryo-EM technology grows, so does the demand for comprehensive support services to ensure efficient operation and maximize the return on investment. This segment is expected to experience steady growth, underpinned by the increasing complexity of Cryo-EM systems and the need for specialized expertise in their operation and maintenance.

Report Scope