{"EMPIAR-10493":{"imagesets":[{"segmentations":[],"name":"Unaligned Frames from the microscope. Data were recorded","directory":"data/Frames","category":"tilt series","header_format":"MRC","data_format":"TIFF","num_images_or_tilt_series":156,"frames_per_image":10,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED 16 BIT INTEGER","pixel_width":1.532,"pixel_height":1.532,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"156 tilt series of unconcentrated SARS-CoV-2 virions with the raw frames. The Frames collected from Titan Krios operated at 300 kV using a Gatan K2 camera. The energy filter used was 20 eV. Data collection was done in SerialEM 3.8.0 using the dose-symmetric scheme (Tilt Series Controler), 3 degrees per tilt step, +/- 60 degrees. 10 Frames were saved per each tilt image. The exposure dose per tilt image is 3.0 electrons per angstrom squared. See mdoc files for the order of the images acquired.\n\nPlease use data/gainRef/CountRef_TS_001_000_-0.0.dm4 as the gain reference.\nPlease see data/mdoc folder for the metadata of the 156 tilt series of unconcentrated SARS-CoV-2 virions","image_width":"3710","image_height":"3838"},{"segmentations":[],"name":"Aligned and order sorted stack of the tilt series. This is not dose-filtered stack. Associated mdoc files are included in this folder.","directory":"data/aligned_stack","category":"tilt series","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":156,"frames_per_image":41,"frame_range_min":null,"frame_range_max":null,"voxel_type":"SIGNED 16 BIT INTEGER","pixel_width":1.532,"pixel_height":1.532,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"156 tilt series of unconcentrated SARS-CoV-2 virions with aligned stacks and associated mdoc files. The stacks are sorted and not dose-filtered. Data collection was done in SerialEM 3.8.0 using the dose-symmetric scheme (Tilt Series Controler), 3 degrees per tilt step, +/- 60 degrees. The exposure dose per tilt image is 3.0 electrons per angstrom squared. Motion correction was done using alignframes command in IMOD 4.10.30 and the raw frames are in the data/Frames folder.","image_width":"3710","image_height":"3838"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"Subtomogram averaging and classification of SARS-CoV-2 Spike Proteins on intact virions","principal_investigator":[{"author_orcid":"0000-0003-3990-6910","middle_name":null,"organization":"MRC Laboratory of Molecular Biology","street":"FRANCIS CRICK AVE","town_or_city":"Cambridge","state_or_province":"Cambridgeshire","post_or_zip":"CB2 0QH","telephone":"+44-1223467245","fax":null,"first_name":"John","last_name":"Briggs","email":"jbriggs [at] mrc-lmb.cam.ac.uk","country":"United Kingdom","entry":"EMPIAR-10493"}],"status":"REL","deposition_date":"2020-08-05","release_date":"2020-08-19","obsolete_date":null,"update_date":"2020-08-19","corresponding_author":{"author":{"author_orcid":"0000-0002-8408-850X","middle_name":null,"organization":"MRC Laboratory of Molecular Biology","street":"FRANCIS CRICK AVE","town_or_city":"Cambridge","state_or_province":"Cambridgeshire","post_or_zip":"CB2 0QH","first_name":"Zunlong","last_name":"Ke","country":"United Kingdom"}},"authors":[{"author":{"name":"Ke Z","author_orcid":"0000-0002-8408-850X"}},{"author":{"name":"Oton J","author_orcid":"0000-0002-2195-4730"}},{"author":{"name":"Cortese M","author_orcid":"0000-0003-1786-4211"}},{"author":{"name":"Zila V","author_orcid":"0000-0003-2032-3600"}},{"author":{"name":"Zivanov J","author_orcid":null}},{"author":{"name":"Lu JM","author_orcid":null}},{"author":{"name":"Peukes J","author_orcid":null}},{"author":{"name":"Scheres SHW","author_orcid":"0000-0002-0462-6540"}},{"author":{"name":"Briggs JAG","author_orcid":"0000-0003-3990-6910"}}],"cross_references":["EMD-11496","EMD-11494","EMD-11495","EMD-11493"],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Ke Z","author_orcid":"0000-0002-8408-850X"},{"name":"Oton J","author_orcid":"0000-0002-2195-4730"},{"name":"Qu K","author_orcid":"0000-0002-3152-2237"},{"name":"Cortese M","author_orcid":"0000-0003-1786-4211"},{"name":"Zila V","author_orcid":"0000-0003-2032-3600"},{"name":"McKeane L","author_orcid":null},{"name":"Nakane T","author_orcid":"0000-0003-2697-2767"},{"name":"Zivanov J","author_orcid":null},{"name":"Neufeldt CJ","author_orcid":"0000-0002-4551-1811"},{"name":"Cerikan B","author_orcid":null},{"name":"Lu JM","author_orcid":"0000-0002-3972-8854"},{"name":"Peukes J","author_orcid":null},{"name":"Xiong X","author_orcid":"0000-0002-4632-9122"},{"name":"Kräusslich HG","author_orcid":null},{"name":"Scheres SHW","author_orcid":"0000-0002-0462-6540"},{"name":"Bartenschlager R","author_orcid":"0000-0001-5601-9307"},{"name":"Briggs JAG","author_orcid":"0000-0003-3990-6910"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Structures and distributions of SARS-CoV-2 spike proteins on intact virions.","volume":null,"country":"United Kingdom","first_page":null,"last_page":null,"year":"2020","language":"English","doi":"10.1038/s41586-020-2665-2","pubmedid":"32805734","details":"The micrographs are raw frames collected from Titan Krios operated at 300 kV and recorded using a K2 camera. Each micrograph contains 10 frames, with an accumulated dose of 3 electrons per angstrom squared per tilt image. The sample is unconcentrated SARS-CoV-2 virions from infected VeroE6 cells, and the virus strain is Germany/BavPat1/2020.","book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Nature","journal_abbreviation":"Nature","issue":null,"preprint":false}],"dataset_size":"372.4 GB","experiment_type":"EMDB","scale":null,"entry_doi":"10.6019/EMPIAR-10493"}}