Equivalence class NR_3.5_83098.9 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8XSX|1|CC (rep) | Transfer RNA | E-tRNA | Homo sapiens | Eukarya | RF00005 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 | Electron microscopy | 2.4 | 75 | 2024-07-10 |
| 2 | 6ZP4|1|1 | Transfer RNA | tRNA | Homo sapiens | Eukarya | RF00005 | SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2 | Electron microscopy | 2.9 | 75 | 2020-07-29 |
| 3 | 8PPL|1|Iw | Transfer RNA | Met-tRNAi(Met) | Homo sapiens | Eukarya | RF00005 | MERS-CoV Nsp1 bound to the human 43S pre-initiation complex | Electron microscopy | 2.65 | 75 | 2023-10-18 |
| 4 | 9YPZ|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 1, Structure Ia | Electron microscopy | 2.9 | 74 | 2025-12-24 |
| 5 | 9YQ1|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 3, Structure Ic | Electron microscopy | 2.9 | 74 | 2025-12-17 |
| 6 | 9YQ0|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 2, Structure Ib | Electron microscopy | 2.9 | 74 | 2025-12-17 |
| 7 | 9YPY|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | Ribosome with accommodated A-site tRNA, Structure V | Electron microscopy | 3 | 74 | 2025-12-24 |
| 8 | 8K2C|1|CC | Transfer RNA | tRNA-Met | Homo sapiens | Eukarya | RF00005 | Cryo-EM structure of the human 80S ribosome with Tigecycline | Electron microscopy | 2.4 | 75 | 2024-07-10 |
| 9 | 7QVP|1|B5 | Transfer RNA | mRNA, tRNA P/E | Homo sapiens | Eukarya | RF00005 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | Electron microscopy | 3 | 75 | 2022-10-12 |
| 10 | 8PJ5|1|w | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of human 48S translation initiation complex after eIF2 release prior 60S subunit joining (48S-5) | Electron microscopy | 2.9 | 75 | 2024-08-14 |
| 11 | 9YPW|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV | Electron microscopy | 2.9 | 74 | 2025-12-31 |
| 12 | 9KRP|1|zy | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of the HCV IRES-dependent 48S translation initiation complex with eIF5B and eIF3 | Electron microscopy | 3.2 | 75 | 2025-12-03 |
| 13 | 7A09|1|f | Transfer RNA | tRNA | Homo sapiens | Eukarya | RF00005 | Structure of a human ABCE1-bound 43S pre-initiation complex - State III | Electron microscopy | 3.5 | 75 | 2020-10-14 |
| 14 | 8PJ6|1|w | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of human 48S translation initiation complex with initiator tRNA, eIF1A and eIF3 (off-pathway) | Electron microscopy | 2.9 | 73 | 2024-08-14 |
| 15 | 9YPO|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa | Electron microscopy | 3 | 74 | 2025-12-17 |
| 16 | 6Y57|1|B4 | Transfer RNA | mRNA, P/E tRNA | Homo sapiens | Eukarya | RF00005 | Structure of human ribosome in hybrid-PRE state | Electron microscopy | 3.5 | 75 | 2020-04-15 |
| 17 | 8XSZ|1|CC | Transfer RNA | tRNA | Homo sapiens | Eukarya | RF00005 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA and P-tRNA | Electron microscopy | 3.2 | 75 | 2024-07-10 |
| 18 | 9KN6|1|zy | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of the HCV IRES-dependent pre-48S translation initiation complex with eIF1A, eIF5B, and eIF3 | Electron microscopy | 3.3 | 75 | 2025-12-03 |
| 19 | 9YPG|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the GTPase activation-like state, Structure III | Electron microscopy | 3 | 74 | 2025-12-31 |
| 20 | 9YPS|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb | Electron microscopy | 3 | 74 | 2025-12-17 |
| 21 | 9YPT|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIc | Electron microscopy | 3.1 | 74 | 2025-12-17 |
| 22 | 8PJ4|1|w | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of human 48S translation initiation complex after eIF5 release (48S-4) | Electron microscopy | 3.2 | 75 | 2024-08-14 |
| 23 | 9YPV|1|13 | Transfer RNA | Met-tRNA, MF mRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IId | Electron microscopy | 3 | 74 | 2025-12-17 |
| 24 | 8PJ1|1|w | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of human 48S translation initiation complex in open codon scanning state (48S-1) | Electron microscopy | 3.4 | 75 | 2024-08-14 |
| 25 | 9YPZ|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 1, Structure Ia | Electron microscopy | 2.9 | 74 | 2025-12-24 |
| 26 | 8PJ2|1|w | Transfer RNA | Initiator Met-tRNA-i | Homo sapiens | Eukarya | RF00005 | Structure of human 48S translation initiation complex in AUG recognition state after eIF5-induced GTP hydrolysis by eIF2 (48S-2) | Electron microscopy | 3.4 | 75 | 2024-08-14 |
| 27 | 9YQ1|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 3, Structure Ic | Electron microscopy | 2.9 | 74 | 2025-12-17 |
| 28 | 9YQ0|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | Vacant ribosome with P-site tRNA, substate 2, Structure Ib | Electron microscopy | 2.9 | 74 | 2025-12-17 |
| 29 | 7TQL|1|3 | Transfer RNA | Human Met-tRNAiMet | Homo sapiens | Eukarya | RF00005 | CryoEM structure of the human 40S small ribosomal subunit in complex with translation initiation factors eIF1A and eIF5B. | Electron microscopy | 3.4 | 75 | 2022-04-27 |
| 30 | 9YPY|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | Ribosome with accommodated A-site tRNA, Structure V | Electron microscopy | 3 | 74 | 2025-12-24 |
| 31 | 9YPV|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IId | Electron microscopy | 3 | 74 | 2025-12-17 |
| 32 | 9YPS|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb | Electron microscopy | 3 | 74 | 2025-12-17 |
| 33 | 9YPW|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV | Electron microscopy | 2.9 | 74 | 2025-12-31 |
| 34 | 9YPO|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa | Electron microscopy | 3 | 74 | 2025-12-17 |
| 35 | 9YPT|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIc | Electron microscopy | 3.1 | 74 | 2025-12-17 |
| 36 | 8XSZ|1|CD | Transfer RNA | tRNA | Homo sapiens | Eukarya | RF00005 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA and P-tRNA | Electron microscopy | 3.2 | 75 | 2024-07-10 |
| 37 | 9YPG|1|11 | Transfer RNA | Met-tRNA | Homo sapiens | Eukarya | RF00005 | GTPBP1*GCP*Phe-tRNA*ribosome in the GTPase activation-like state, Structure III | Electron microscopy | 3 | 74 | 2025-12-31 |
| 38 | 8XSY|1|CC | Transfer RNA | E-tRNA | Homo sapiens | Eukarya | RF00005 | Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled) | Electron microscopy | 3 | 69 | 2024-07-10 |
| 39 | 6QZP|1|S6 | Transfer RNA | E site tRNA (75-MER) | Homo sapiens | Eukarya | RF00005 | High-resolution cryo-EM structure of the human 80S ribosome | Electron microscopy | 2.9 | 75 | 2019-04-24 |
Release history
| Release | 4.20 |
|---|---|
| Date | 2025-12-31 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | #NTs |
|---|---|---|---|---|---|---|
| 1 | 6QZP|1|S6 | High-resolution cryo-EM structure of the human 80S ribosome | ELECTRON MICROSCOPY | 2.9 | 75 | |
| 2 | 9YQ0|1|11 | Vacant ribosome with P-site tRNA, substate 2, Structure Ib | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 3 | 9YPG|1|11 | GTPBP1*GCP*Phe-tRNA*ribosome in the GTPase activation-like state, Structure III | ELECTRON MICROSCOPY | 3 | 74 | |
| 4 | 9YPW|1|11 | GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 5 | 9YPT|1|11 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIc | ELECTRON MICROSCOPY | 3.1 | 74 | |
| 6 | 9YPO|1|11 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa | ELECTRON MICROSCOPY | 3 | 74 | |
| 7 | 9YPS|1|11 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb | ELECTRON MICROSCOPY | 3 | 74 | |
| 8 | 9YPV|1|11 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IId | ELECTRON MICROSCOPY | 3 | 74 | |
| 9 | 9YPY|1|11 | Ribosome with accommodated A-site tRNA, Structure V | ELECTRON MICROSCOPY | 3 | 74 | |
| 10 | 9YPZ|1|11 | Vacant ribosome with P-site tRNA, substate 1, Structure Ia | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 11 | 9YQ1|1|11 | Vacant ribosome with P-site tRNA, substate 3, Structure Ic | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 12 | 8XSY|1|CC | Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled) | ELECTRON MICROSCOPY | 3 | 69 | |
| 13 | 8K2C|1|CC | Cryo-EM structure of the human 80S ribosome with Tigecycline | ELECTRON MICROSCOPY | 2.4 | 75 | |
| 14 | 8XSX|1|CC | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 | ELECTRON MICROSCOPY | 2.4 | 75 | |
| 15 | 8XSZ|1|CC | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA and P-tRNA | ELECTRON MICROSCOPY | 3.2 | 75 | |
| 16 | 7QVP|1|B5 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | ELECTRON MICROSCOPY | 3 | 75 | |
| 17 | 6Y57|1|B4 | Structure of human ribosome in hybrid-PRE state | ELECTRON MICROSCOPY | 3.5 | 75 | |
| 18 | 9YPY|1|13 | Ribosome with accommodated A-site tRNA, Structure V | ELECTRON MICROSCOPY | 3 | 74 | |
| 19 | 9YPW|1|13 | GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 20 | 9YPT|1|13 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIc | ELECTRON MICROSCOPY | 3.1 | 74 | |
| 21 | 9YPS|1|13 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb | ELECTRON MICROSCOPY | 3 | 74 | |
| 22 | 9YPG|1|13 | GTPBP1*GCP*Phe-tRNA*ribosome in the GTPase activation-like state, Structure III | ELECTRON MICROSCOPY | 3 | 74 | |
| 23 | 9YPV|1|13 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IId | ELECTRON MICROSCOPY | 3 | 74 | |
| 24 | 9YQ1|1|13 | Vacant ribosome with P-site tRNA, substate 3, Structure Ic | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 25 | 9YQ0|1|13 | Vacant ribosome with P-site tRNA, substate 2, Structure Ib | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 26 | 9YPO|1|13 | GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa | ELECTRON MICROSCOPY | 3 | 74 | |
| 27 | 9YPZ|1|13 | Vacant ribosome with P-site tRNA, substate 1, Structure Ia | ELECTRON MICROSCOPY | 2.9 | 74 | |
| 28 | 8XSZ|1|CD | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA and P-tRNA | ELECTRON MICROSCOPY | 3.2 | 75 | |
| 29 | 8PJ2|1|w | Structure of human 48S translation initiation complex in AUG recognition state after eIF5-induced GTP hydrolysis by eIF2 (48S-2) | ELECTRON MICROSCOPY | 3.4 | 75 | |
| 30 | 8PJ6|1|w | Structure of human 48S translation initiation complex with initiator tRNA, eIF1A and eIF3 (off-pathway) | ELECTRON MICROSCOPY | 2.9 | 73 | |
| 31 | 7A09|1|f | Structure of a human ABCE1-bound 43S pre-initiation complex - State III | ELECTRON MICROSCOPY | 3.5 | 75 | |
| 32 | 6ZP4|1|1 | SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2 | ELECTRON MICROSCOPY | 2.9 | 75 | |
| 33 | 8PPL|1|Iw | MERS-CoV Nsp1 bound to the human 43S pre-initiation complex | ELECTRON MICROSCOPY | 2.65 | 75 | |
| 34 | 8PJ1|1|w | Structure of human 48S translation initiation complex in open codon scanning state (48S-1) | ELECTRON MICROSCOPY | 3.4 | 75 | |
| 35 | 8PJ4|1|w | Structure of human 48S translation initiation complex after eIF5 release (48S-4) | ELECTRON MICROSCOPY | 3.2 | 75 | |
| 36 | 8PJ5|1|w | Structure of human 48S translation initiation complex after eIF2 release prior 60S subunit joining (48S-5) | ELECTRON MICROSCOPY | 2.9 | 75 | |
| 37 | 9KN6|1|zy | Structure of the HCV IRES-dependent pre-48S translation initiation complex with eIF1A, eIF5B, and eIF3 | ELECTRON MICROSCOPY | 3.3 | 75 | |
| 38 | 9KRP|1|zy | Structure of the HCV IRES-dependent 48S translation initiation complex with eIF5B and eIF3 | ELECTRON MICROSCOPY | 3.2 | 75 | |
| 39 | 7TQL|1|3 | CryoEM structure of the human 40S small ribosomal subunit in complex with translation initiation factors eIF1A and eIF5B. | ELECTRON MICROSCOPY | 3.4 | 75 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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