{"EMPIAR-10343":{"imagesets":[{"segmentations":[],"name":"Unaligned 80-frame movies of αVβ8 integrin bound to latent TGF-β on a holey carbon grid","directory":"data/Movies_18aug24b","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1684,"frames_per_image":80,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":0.6725,"pixel_height":0.6725,"micrographs_file_pattern":"data/Movies_18aug24b/18aug24b_*.tif","picked_particles_file_pattern":"data/Stack_18aug24b/Micrographs/18aug24b_*_DW.mrcs","picked_particles_directory":"data/Stack_18aug24b/Micrographs","details":"αVβ8 integrin bound to latent TGF-β on holey carbon grids (particles have strongly preferred orientations): 1684 unaligned uncorrected movies were recorded automatically using SerialEM on a K2 camera in super-resolution (dstep=2.5) mode on a Titan Krios microscope operated at 300 kV (Cs=2.7) equipped with an energy filter using a slit width of 20 eV. The 16 second movies contain 80 frames and the super resolution pixel size is 0.6725 Å/px. The total dose per movie is ~70 e/Å^2. The gain reference, a file containing coordinates for a single dead column, and a list of the 1364 micrographs that were used for downstream processing are included.","image_width":"7676","image_height":"7420"},{"segmentations":[],"name":"Dose-weighted aligned micrographs of αVβ8 integrin bound to latent TGF-β on a holey carbon grid","directory":"data/Micrographs_18aug24b","category":"micrographs - single frame","header_format":"MRC","data_format":"MRC","num_images_or_tilt_series":1684,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.345,"pixel_height":1.345,"micrographs_file_pattern":"data/Micrographs_18aug24b/18aug24b_*.mrc","picked_particles_file_pattern":"data/Stack_18aug24b/Micrographs/18aug24b_*_DW.mrcs","picked_particles_directory":"data/Stack_18aug24b/Micrographs","details":"αVβ8 integrin bound to latent TGF-β on holey carbon grids (particles have strongly preferred orientations): 1684 aligned and dose-weighted (in MotionCor2) micrographs recorded automatically using SerialEM on a K2 camera (dstep=5) in super-resolution mode on a Titan Krios microscope operated at 300 kV (Cs=2.7) equipped with an energy filter using a slit width of 20 eV. Images were binned by 2 using Fourier cropping and the binned pixel size is 1.345. The total dose per micrograph is ~70 e/Å^2. A list of the 1364 micrographs that were used for downstream processing is included.","image_width":"3838","image_height":"3710"},{"segmentations":[],"name":"Dose-weighted aligned particle stacks of αVβ8 integrin bound to latent TGF-β on a holey carbon grid","directory":"data/Stack_18aug24b","category":"picked particles - single frame - processed","header_format":"MRCS","data_format":"MRCS","num_images_or_tilt_series":68356,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"32 BIT FLOAT","pixel_width":1.345,"pixel_height":1.345,"micrographs_file_pattern":"data/Micrographs_18aug24b/18aug24b_*.mrc","picked_particles_file_pattern":"data/Stack_18aug24b/Micrographs/18aug24b_*_DW.mrcs","picked_particles_directory":"data/Stack_18aug24b/Micrographs","details":"αVβ8 integrin bound to latent TGF-β on holey carbon grids (particles have strongly preferred orientations): Stacks of 68,356  dose-weighted (in MotionCor2) particles contributing to the seven conformational snapshots described in the publication . Particles were selected after extensive 2D- and 3D classification. Images were recorded automatically using SerialEM on a K2 camera (dstep=5) in super-resolution mode on a Titan Krios microscope operated at 300 kV (Cs=2.7) equipped with an energy filter using a slit width of 20 eV. Images were binned by 2 using Fourier cropping and the binned pixel size is 1.345. This particle stack was combined with a stack of particles collected on graphene oxide to complement preferred orientations. The graphene oxide particle stack is deposited with the accession number EMPIAR-10344.","image_width":"300","image_height":"300"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"CryoEM dataset containing multiple conformations of the asymmetric αVβ8 integrin bound to latent TGF-β on a holey carbon grid (strongly preferred orientations)","principal_investigator":[{"author_orcid":"0000-0001-9535-0369","middle_name":null,"organization":"Department of Biochemistry and Biophysics, University of California, San Francisco","street":"600 16th Street, Room S472D","town_or_city":"San Francisco","state_or_province":"CA","post_or_zip":"94143","telephone":null,"fax":null,"first_name":"Yifan","last_name":"Cheng","email":"yifan.cheng [at] ucsf.edu","country":"United States","entry":"EMPIAR-10343"}],"status":"REL","deposition_date":"2019-10-23","release_date":"2020-01-31","obsolete_date":null,"update_date":"2020-04-24","corresponding_author":{"author":{"author_orcid":"0000-0003-1909-5751","middle_name":"Grace","organization":"UCSF","street":"600 16th Street, Room S474","town_or_city":"San Francisco","state_or_province":"CA","post_or_zip":"94143","first_name":"Melody","last_name":"Campbell","country":"United States"}},"authors":[{"author":{"name":"Campbell MG","author_orcid":"0000-0003-1909-5751"}},{"author":{"name":"Cheng Y","author_orcid":"0000-0001-9535-0369"}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Campbell MG","author_orcid":"0000-0003-1909-5751"},{"name":"Cormier A","author_orcid":"0000-0002-2848-9536"},{"name":"Ito S","author_orcid":null},{"name":"Seed RI","author_orcid":null},{"name":"Bondesson AJ","author_orcid":null},{"name":"Lou J","author_orcid":null},{"name":"Marks JD","author_orcid":null},{"name":"Baron J","author_orcid":null},{"name":"Cheng Y","author_orcid":"0000-0001-9535-0369"},{"name":"Nishimura SL","author_orcid":"0000-0003-2312-4113"}],"editors":[],"published":true,"j_or_nj_citation":true,"title":"Cryo-EM Reveals Integrin-Mediated TGF-β Activation without Release from Latent TGF-β","volume":null,"country":"","first_page":null,"last_page":null,"year":"2020","language":"English","doi":"10.1016/j.cell.2019.12.030","pubmedid":"31955848","details":null,"book_chapter_title":null,"publisher":null,"publication_location":null,"journal":"Cell","journal_abbreviation":"Cell","issue":null,"preprint":false}],"dataset_size":"1.2 TB","experiment_type":"EMDB","scale":null,"entry_doi":"10.6019/EMPIAR-10343"}}