REL 2024-05-25 2025-02-04 2025-02-04 0000-0003-0300-3867 Marie-Christin Spindler European Molecular Biology Laboratory Meyerhofstrasse 1 Heidelberg Germany 69117 0000-0001-6968-041X Julia Mahamid European Molecular Biology Laboratory Meyerhofstrasse 1 Heidelberg Germany 69117 Spindler MC Mahamid J European Research Council (ERC) 760067 Germany 165.4 10.6019/EMPIAR-12104 EMDB cell EMD-50409 EMD-50415 Xie Y Shu T Liu T Spindler MC Mahamid J Hocky GM Gresham D Holt LJ Molecular cell Mol Cell 14 84 2698 2716.e9 2024 English 10.1016/j.molcel.2024.06.024 39059370

Deposition of 14 tomograms (4 for control cells in glucose rich media, and 10 for the acute glucose starvation condition) used to determine polysome assembly states.

Raw unaligned multi-frame micrographs for each tilt in 4 tilt-series on native S. cerevisiae cryo-FIB lamellae /data/Control/frames micrographs - multiframe TIFF TIFF 203 10 UNSIGNED BYTE 5760 3.425 4092 variable

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks using Warp (st files in metadata folder) and tomograms reconstructed using AreTomo. Naming for tomograms of control cells: TS_006, TS_007, TS_008, TS_017. Original metadata files (mdocs_ori) and the count ref file (dm4 file) are provided in the frames folder.

Reconstructed cryo-electron tomograms acquired on native S. cerevisiae cryo-FIB lamellae /data/Control/tomograms reconstructed volumes MRC MRC 4 1 32 BIT FLOAT 1022 13.7 1440 13.7

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.425Å) from aligned frame stacks (st files in metadata folder, tif files in frames folder), mdoc and xf alignment files (in metadata folder). Naming for tomograms of control cells: TS_006, TS_007, TS_008, TS_017. For each of the 4 tomograms, cleaned particle lists are provided in the labels folder. Ribosome particle coordinates (star files) are provided in the corresponding particle_lists folder.

data/Control/labels 3D annotation volumes for ribosomes localised in 4x binned reconstructed tomograms (13.7 A voxel size) are provided in the labels folder. MRC Tilt series stacks and metadata of cryo-electron tomograms acquired on native S. cerevisae cryo-FIB lamellae /data/Control/metadata tilt series MRC MRC 4 1 32 BIT FLOAT variable 3.425 variable 3.425

Tilt series stacks (st files from Warp) from aligned frame stacks (in frames folder), tilt series alignment files (xf files) and acquisition metadata files modified to exclude bad tilts (in mdocs_modified) required to reconstruct tomograms (in tomograms folder). Naming for tomograms of control cells: TS_006, TS_007, TS_008, TS_017.

Raw unaligned multi-frame micrographs for each tilt in 10 tilt-series acquired on S. cerevisiae cryo-FIB lamellae under acute glucose starvation /data/Acute_glucose_starvation/frames micrographs - multiframe TIFF TIFF 565 10 UNSIGNED 16 BIT INTEGER 5760 3.425 4092 3.425

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks using Warp (st files in metadata folder) and tomograms reconstructed using AreTomo. Naming for tomograms of cells under glucose starvation: TS_001, TS_002, TS_003, TS_004, TS_007, TS_008, TS_010, TS_014, TS_017, TS_018. Original metadata files (mdocs_ori) provided in the frames folder.

Reconstructed cryo-electron tomograms acquired on S. cerevisiae cryo-FIB lamellae under acute glucose starvation /data/Acute_glucose_starvation/tomograms reconstructed volumes MRC MRC 10 1 32 BIT FLOAT 1022 13.7 1440 13.7

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.425Å) from aligned frame stacks (st files in metadata folder, tif files in frames folder), mdoc and xf alignment files (in metadata folder). Naming for tomograms of cells under glucose starvation: TS_001, TS_002, TS_003, TS_004, TS_007, TS_008, TS_010, TS_014, TS_017, TS_018. For each of the 10 tomograms, cleaned particle lists are provided in the labels folder. Ribosome particle coordinates (starfiles) are provided in the corresponding particle_lists folder.

data/Acute_glucose_starvation/labels 3D annotation volumes for ribosomes localised in 4x binned reconstructed tomograms (13.7 A voxel size) are provided in the labels folder. MRC Tilt series stacks and metadata of cryo-electron tomograms acquired on S. cerevisae cryo-FIB lamellae under acute glucose starvation /data/Acute_glucose_starvation/metadata tilt series MRC MRC 10 1 32 BIT FLOAT 5760 3.425 4092 3.425

Tilt series stacks (st files from Warp) from aligned frame stacks (in frames folder), tilt series alignment files (xf files) and acquisition metadata files modified to exclude bad tilts (in mdocs_modified) required to reconstruct tomograms (in tomograms folder). Naming for tomograms of cells under glucose starvation: TS_001, TS_002, TS_003, TS_004, TS_007, TS_008, TS_010, TS_014, TS_017, TS_018.