2026-01-21 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2024-03-26 2025-10-08 2025-10-08 2026-01-21 European Research Council (ERC) 101001394 European Union Yeast 80S ribosome PRE-translocation-hybrid P/E A/A (PRE-H1) Koziej L Glatt S ribosome, urm, ncs2ncs6, elp, elongator, tRNA modification, tRNA thiolation, tRNA recognition, TRANSLATION Wu J Eggers C Sin O Koziej L Mancilla H Mollet F Scholer HR Drexler HCA Ranff T Fufezan C Kraft C Glatt S Bruder JM Leidel SA Suboptimal codon pairs trigger ribosome collisions and cellular quality control responses in tRNA modification mutants. Nucleic Acids Res. UK 53 2025 41429421 doi:10.1093/nar/gkaf1311 1362-4962 0389 NARHAD Koziej L Glatt S Codon Pair-Specific Translation Defects Trigger Ribosome-Associated Quality Control to Avoid Proteotoxic Stress Biorxiv US 2024 doi:10.1101/2024.02.27.582385 2692-8205 EMD-19945 other EM volume EMD-19946 other EM volume EMD-19947 other EM volume EMD-19948 other EM volume EMD-19950 other EM volume EMD-19951 other EM volume EMD-19952 other EM volume EMD-19953 other EM volume EMDB EMD-19949 associated EM volume EMDB EMD-19945 other EM volume EMDB EMD-19946 other EM volume EMDB EMD-19947 other EM volume EMDB EMD-19948 other EM volume EMDB EMD-19950 other EM volume EMDB EMD-19951 other EM volume EMDB EMD-19952 other EM volume EMDB EMD-19953 other EM volume Yeast 80S ribosome PRE-translocation-hybrid P/E A/A (PRE-H1) Yeast 80S ribosome PRE-translocation-hybrid P/E A/A (PRE-H1) 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 Saccharomyces cerevisiae BY4741 3.3 singleParticle particle 10 7.5 50.0 Tris-HCl tris(hydroxymethyl)aminomethane 50.0 NH4Cl ammonium chloride 50.0 KCl potassium chloride 7.0 MgCl2 magnesium chloride 1.0 DTT dithiothreitol Quantifoil R2/1 COPPER 200 CARBON HOLEY GLOW DISCHARGE AIR ETHANE 100 277 FEI VITROBOT MARK IV
Concentration of the sample: 20 A260 (absorbance at 260 nm, 10 mm path), 10 A280 (absorbance at 280 nm, 10 mm path)
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.7000000000000001 2.2 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 36663 1.82 40.0 1 6454715
Template Picking
 cryoSPARC 4.4.1 PHASE FLIPPING AND AMPLITUDE CORRECTION
Ab-initio
 2 C1 FOURIER SPACE 1.84 FSC 0.143 CUT-OFF cryoSPARC 4.4.1 Homogenous Refinement 537120 MAXIMUM LIKELIHOOD cryoSPARC 4.4.1 Ab-initio MAXIMUM LIKELIHOOD cryoSPARC 4.4.1 Homogenous Refinement 10 216000.0 cryoSPARC 4.4.1 3D Class
Focused/Masked 3D classification without angular assignment
 emd_19949.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 507.36002 507.36002 507.36002 90.0 90.0 90.0 X Y Z -0.010856465 2.7812967 0.0063541695 0.06511791 0.8456 0.8456 0.8456 0.2 AUTHOR Map combined from 2 independent halves and post-processed by DeepEMhancer with binary mask normalization mode using refinement mask. emd_19949_msk_1.map emd_19949_msk_2.map emd_19949_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 507.36002 507.36002 507.36002 90.0 90.0 90.0 X Y Z -0.14863099 0.697357 -0.0002710585 0.016155777 0.8456 0.8456 0.8456 AUTHOR Map combined from 2 independent halves. Not post-processed. emd_19949_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 507.36002 507.36002 507.36002 90.0 90.0 90.0 X Y Z -0.688896 1.8456377 -0.00027105844 0.035398897 0.8456 0.8456 0.8456 AUTHOR Combined half maps post-processed using sharpening B factor 37.8. emd_19949_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 507.36002 507.36002 507.36002 90.0 90.0 90.0 X Y Z -0.20662715 0.7730865 0.00069569977 0.025391778 0.8456 0.8456 0.8456 AUTHOR emd_19949_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 507.36002 507.36002 507.36002 90.0 90.0 90.0 X Y Z -0.20062196 0.7798628 0.0006950945 0.025382647 0.8456 0.8456 0.8456 AUTHOR