Equivalence class NR_3.0_52752.25 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8GLP|1|L7 (rep) | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure) | Electron microscopy | 1.67 | 2023-04-19 |
| 2 | 8A3D|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound | Electron microscopy | 1.67 | 2023-03-08 |
| 3 | 8QOI|1|L7 | 5S ribosomal RNA | 5S rRNA (120-MER) | Homo sapiens | Eukarya | RF00001 | Structure of the human 80S ribosome at 1.9 A resolution - the molecular role of chemical modifications and ions in RNA | Electron microscopy | 1.9 | 2024-06-12 |
| 4 | 8YOO|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human 80S ribosome with 100 um Tigecycline | Electron microscopy | 2 | 2024-07-10 |
| 5 | 8YOP|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline | Electron microscopy | 2.2 | 2024-07-10 |
| 6 | 7OW7|1|B | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | EIF6-bound large subunit of the human ribosome | Electron microscopy | 2.2 | 2022-10-05 |
| 7 | 8QFD|1|7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | UFL1 E3 ligase bound 60S ribosome | Electron microscopy | 2.2 | 2024-02-21 |
| 8 | 8JDK|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU) | Electron microscopy | 2.26 | 2023-12-06 |
| 9 | 8G5Y|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state) | Electron microscopy | 2.29 | 2023-04-19 |
| 10 | 8K2C|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human 80S ribosome with Tigecycline | Electron microscopy | 2.4 | 2024-07-10 |
| 11 | 8XSX|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 | Electron microscopy | 2.4 | 2024-07-10 |
| 12 | 8JDL|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (non-rotated state) | Electron microscopy | 2.42 | 2023-12-06 |
| 13 | 7XNY|1|L2 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells | Electron microscopy | 2.5 | 2023-04-05 |
| 14 | 8JDJ|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU) | Electron microscopy | 2.5 | 2023-12-06 |
| 15 | 8G60|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state) | Electron microscopy | 2.54 | 2023-04-19 |
| 16 | 8IFE|1|1B | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Arbekacin-added human 80S ribosome | Electron microscopy | 2.57 | 2024-02-14 |
| 17 | 8FL7|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State J2) | Electron microscopy | 2.55 | 2023-07-12 |
| 18 | 8FLE|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State L2) | Electron microscopy | 2.48 | 2023-07-12 |
| 19 | 8IFD|1|1B | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Dibekacin-added human 80S ribosome | Electron microscopy | 2.59 | 2024-02-14 |
| 20 | 8FLB|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State K2) | Electron microscopy | 2.55 | 2023-07-12 |
| 21 | 6ZMI|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complex | Electron microscopy | 2.6 | 2020-08-19 |
| 22 | 8G5Z|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state) | Electron microscopy | 2.64 | 2023-04-19 |
| 23 | 8FL6|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State J1) | Electron microscopy | 2.62 | 2023-07-12 |
| 24 | 8JDM|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state) | Electron microscopy | 2.67 | 2023-12-06 |
| 25 | 8FLA|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State K1) | Electron microscopy | 2.63 | 2023-07-12 |
| 26 | 8FLD|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State L1) | Electron microscopy | 2.58 | 2023-07-12 |
| 27 | 6ZM7|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complex | Electron microscopy | 2.7 | 2020-07-29 |
| 28 | 7XNX|1|L2 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells | Electron microscopy | 2.7 | 2023-04-05 |
| 29 | 8FL3|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State I2) | Electron microscopy | 2.53 | 2023-07-12 |
| 30 | 7F5S|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | human delta-METTL18 60S ribosome | Electron microscopy | 2.72 | 2022-06-22 |
| 31 | 8FLF|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State L3) | Electron microscopy | 2.65 | 2023-07-12 |
| 32 | 8FL9|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State J3) | Electron microscopy | 2.75 | 2023-07-12 |
| 33 | 8G6J|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2) | Electron microscopy | 2.8 | 2023-04-19 |
| 34 | 6XA1|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of a drug-like compound stalled human translation termination complex | Electron microscopy | 2.8 | 2020-10-07 |
| 35 | 8IDT|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | human nuclear pre-60S ribosomal particle - State G | Electron microscopy | 2.8 | 2023-08-09 |
| 36 | 8FLC|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State K3) | Electron microscopy | 2.76 | 2023-07-12 |
| 37 | 6Y6X|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Tetracenomycin X bound to the human ribosome | Electron microscopy | 2.8 | 2020-07-08 |
| 38 | 8FL2|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State I1) | Electron microscopy | 2.67 | 2023-07-12 |
| 39 | 8OJ5|1|7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | 60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (in-vitro reconstitution) | Electron microscopy | 2.9 | 2024-02-21 |
| 40 | 6Z6N|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1) | Electron microscopy | 2.9 | 2020-07-29 |
| 41 | 6QZP|1|L7 | 5S ribosomal RNA | 5S rRNA (120-MER) | Homo sapiens | Eukarya | RF00001 | High-resolution cryo-EM structure of the human 80S ribosome | Electron microscopy | 2.9 | 2019-04-24 |
| 42 | 8FL0|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nucleolar pre-60S ribosomal subunit (State H) | Electron microscopy | 2.91 | 2023-07-12 |
| 43 | 8G61|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state) | Electron microscopy | 2.94 | 2023-04-19 |
| 44 | 8XSY|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled) | Electron microscopy | 3 | 2024-07-10 |
| 45 | 6Z6L|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of human CCDC124 bound to 80S ribosomes | Electron microscopy | 3 | 2020-07-29 |
| 46 | 6ZME|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex | Electron microscopy | 3 | 2020-08-12 |
| 47 | 7QVP|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | Electron microscopy | 3 | 2022-10-12 |
| 48 | 7QVP|1|L9 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | Electron microscopy | 3 | 2022-10-12 |
| 49 | 8IDY|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | human nuclear pre-60S ribosomal particle - State F | Electron microscopy | 3 | 2023-08-09 |
| 50 | 8INF|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | human nuclear pre-60S ribosomal particle - State F' | Electron microscopy | 3 | 2023-08-09 |
| 51 | 8FL4|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State I3) | Electron microscopy | 2.89 | 2023-07-12 |
| 52 | 6Y2L|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of human ribosome in POST state | Electron microscopy | 3 | 2020-04-15 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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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 | Length |
|---|---|---|---|---|---|---|
| 1 | 8IFE|1|1B | Arbekacin-added human 80S ribosome | ELECTRON MICROSCOPY | 2.57 | 120 | |
| 2 | 8IFD|1|1B | Dibekacin-added human 80S ribosome | ELECTRON MICROSCOPY | 2.59 | 120 | |
| 3 | 7QVP|1|L9 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | ELECTRON MICROSCOPY | 3 | 120 | |
| 4 | 7QVP|1|L7 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | ELECTRON MICROSCOPY | 3 | 120 | |
| 5 | 6Y2L|1|L7 | Structure of human ribosome in POST state | ELECTRON MICROSCOPY | 3 | 120 | |
| 6 | 8G61|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state) | ELECTRON MICROSCOPY | 2.94 | 120 | |
| 7 | 8G5Z|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state) | ELECTRON MICROSCOPY | 2.64 | 120 | |
| 8 | 8G6J|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2) | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 9 | 8G60|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state) | ELECTRON MICROSCOPY | 2.54 | 120 | |
| 10 | 8GLP|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure) | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 11 | 8G5Y|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state) | ELECTRON MICROSCOPY | 2.29 | 120 | |
| 12 | 8QOI|1|L7 | Structure of the human 80S ribosome at 1.9 A resolution - the molecular role of chemical modifications and ions in RNA | ELECTRON MICROSCOPY | 1.9 | 120 | |
| 13 | 7F5S|1|L7 | human delta-METTL18 60S ribosome | ELECTRON MICROSCOPY | 2.72 | 120 | |
| 14 | 7OW7|1|B | EIF6-bound large subunit of the human ribosome | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 15 | 6QZP|1|L7 | High-resolution cryo-EM structure of the human 80S ribosome | ELECTRON MICROSCOPY | 2.9 | 120 | |
| 16 | 6XA1|1|L7 | Structure of a drug-like compound stalled human translation termination complex | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 17 | 8A3D|1|B | Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 18 | 8K2C|1|L7 | Cryo-EM structure of the human 80S ribosome with Tigecycline | ELECTRON MICROSCOPY | 2.4 | 120 | |
| 19 | 8XSY|1|L7 | Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled) | ELECTRON MICROSCOPY | 3 | 120 | |
| 20 | 8YOO|1|L7 | Cryo-EM structure of the human 80S ribosome with 100 um Tigecycline | ELECTRON MICROSCOPY | 2 | 120 | |
| 21 | 8YOP|1|L7 | Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 22 | 8XSX|1|L7 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 | ELECTRON MICROSCOPY | 2.4 | 120 | |
| 23 | 6Y6X|1|L7 | Tetracenomycin X bound to the human ribosome | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 24 | 6Z6N|1|L7 | Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1) | ELECTRON MICROSCOPY | 2.9 | 120 | |
| 25 | 6Z6L|1|L7 | Cryo-EM structure of human CCDC124 bound to 80S ribosomes | ELECTRON MICROSCOPY | 3 | 120 | |
| 26 | 6ZMI|1|L7 | SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complex | ELECTRON MICROSCOPY | 2.6 | 120 | |
| 27 | 6ZM7|1|L7 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complex | ELECTRON MICROSCOPY | 2.7 | 120 | |
| 28 | 6ZME|1|L7 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex | ELECTRON MICROSCOPY | 3 | 120 | |
| 29 | 7XNY|1|L2 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells | ELECTRON MICROSCOPY | 2.5 | 120 | |
| 30 | 7XNX|1|L2 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells | ELECTRON MICROSCOPY | 2.7 | 120 | |
| 31 | 8OJ5|1|7 | 60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (in-vitro reconstitution) | ELECTRON MICROSCOPY | 2.9 | 120 | |
| 32 | 8JDM|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state) | ELECTRON MICROSCOPY | 2.67 | 120 | |
| 33 | 8JDL|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (non-rotated state) | ELECTRON MICROSCOPY | 2.42 | 120 | |
| 34 | 8JDK|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU) | ELECTRON MICROSCOPY | 2.26 | 120 | |
| 35 | 8JDJ|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU) | ELECTRON MICROSCOPY | 2.5 | 120 | |
| 36 | 8QFD|1|7 | UFL1 E3 ligase bound 60S ribosome | ELECTRON MICROSCOPY | 2.2 | 119 | |
| 37 | 8FLF|1|L4 | Human nuclear pre-60S ribosomal subunit (State L3) | ELECTRON MICROSCOPY | 2.65 | 120 | |
| 38 | 8FLE|1|L4 | Human nuclear pre-60S ribosomal subunit (State L2) | ELECTRON MICROSCOPY | 2.48 | 120 | |
| 39 | 8FLD|1|L4 | Human nuclear pre-60S ribosomal subunit (State L1) | ELECTRON MICROSCOPY | 2.58 | 120 | |
| 40 | 8FL9|1|L4 | Human nuclear pre-60S ribosomal subunit (State J3) | ELECTRON MICROSCOPY | 2.75 | 120 | |
| 41 | 8FL6|1|L4 | Human nuclear pre-60S ribosomal subunit (State J1) | ELECTRON MICROSCOPY | 2.62 | 120 | |
| 42 | 8FL7|1|L4 | Human nuclear pre-60S ribosomal subunit (State J2) | ELECTRON MICROSCOPY | 2.55 | 120 | |
| 43 | 8FLC|1|L4 | Human nuclear pre-60S ribosomal subunit (State K3) | ELECTRON MICROSCOPY | 2.76 | 120 | |
| 44 | 8FLB|1|L4 | Human nuclear pre-60S ribosomal subunit (State K2) | ELECTRON MICROSCOPY | 2.55 | 120 | |
| 45 | 8FLA|1|L4 | Human nuclear pre-60S ribosomal subunit (State K1) | ELECTRON MICROSCOPY | 2.63 | 120 | |
| 46 | 8IDT|1|5 | human nuclear pre-60S ribosomal particle - State G | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 47 | 8IDY|1|5 | human nuclear pre-60S ribosomal particle - State F | ELECTRON MICROSCOPY | 3 | 120 | |
| 48 | 8INF|1|5 | human nuclear pre-60S ribosomal particle - State F' | ELECTRON MICROSCOPY | 3 | 120 | |
| 49 | 8FL4|1|L4 | Human nuclear pre-60S ribosomal subunit (State I3) | ELECTRON MICROSCOPY | 2.89 | 117 | |
| 50 | 8FL3|1|L4 | Human nuclear pre-60S ribosomal subunit (State I2) | ELECTRON MICROSCOPY | 2.53 | 117 | |
| 51 | 8FL2|1|L4 | Human nuclear pre-60S ribosomal subunit (State I1) | ELECTRON MICROSCOPY | 2.67 | 117 | |
| 52 | 8FL0|1|L4 | Human nucleolar pre-60S ribosomal subunit (State H) | ELECTRON MICROSCOPY | 2.91 | 120 |
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.
Coloring options: