Equivalence class NR_3.5_52752.17 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 | 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 |
| 4 | 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 |
| 5 | 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 |
| 6 | 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 |
| 7 | 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 |
| 8 | 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 |
| 9 | 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 |
| 10 | 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 |
| 11 | 7F5S|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | human delta-METTL18 60S ribosome | Electron microscopy | 2.72 | 2022-06-22 |
| 12 | 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 |
| 13 | 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 |
| 14 | 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 |
| 15 | 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 |
| 16 | 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 |
| 17 | 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 |
| 18 | 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 |
| 19 | 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 |
| 20 | 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 |
| 21 | 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 |
| 22 | 6LQM|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of a pre-60S ribosomal subunit - state C | Electron microscopy | 3.09 | 2020-08-26 |
| 23 | 6Z6M|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of human 80S ribosomes bound to EBP1, eEF2 and SERBP1 | Electron microscopy | 3.1 | 2020-07-29 |
| 24 | 6ZMO|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complex | Electron microscopy | 3.1 | 2020-08-19 |
| 25 | 6LSR|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of a pre-60S ribosomal subunit - state B | Electron microscopy | 3.13 | 2020-08-26 |
| 26 | 6LU8|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of a human pre-60S ribosomal subunit - state A | Electron microscopy | 3.13 | 2020-08-26 |
| 27 | 6OLE|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAs | Electron microscopy | 3.1 | 2019-06-19 |
| 28 | 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 |
| 29 | 6OM0|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAs | Electron microscopy | 3.1 | 2019-06-19 |
| 30 | 6LSS|1|5 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of a pre-60S ribosomal subunit - state preA | Electron microscopy | 3.23 | 2020-08-26 |
| 31 | 6Y0G|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of human ribosome in classical-PRE state | Electron microscopy | 3.2 | 2020-04-15 |
| 32 | 7BHP|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Cryo-EM structure of the human Ebp1 - 80S ribosome | Electron microscopy | 3.3 | 2021-02-03 |
| 33 | 6OLG|1|A4 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Human ribosome nascent chain complex stalled by a drug-like small molecule (CDH1_RNC with PP tRNA) | Electron microscopy | 3.4 | 2019-06-19 |
| 34 | 6OLI|1|E | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule (USO1-RNC) | Electron microscopy | 3.5 | 2019-06-19 |
| 35 | 6Y57|1|L7 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Structure of human ribosome in hybrid-PRE state | Electron microscopy | 3.5 | 2020-04-15 |
| 36 | 5AJ0|1|A4 | 5S ribosomal RNA | 5S ribosomal RNA | Homo sapiens | Eukarya | RF00001 | Cryo electron microscopy of actively translating human polysomes (POST state). | Electron microscopy | 3.5 | 2015-05-20 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_52752.17 | NR_3.5_52752.16 | 3.279 | (30) 5AJ0|1|A4, 6LQM|1|5, 6LSR|1|5, 6LSS|1|5, 6LU8|1|5, 6OLE|1|E, 6OLG|1|A4, 6OLI|1|E, 6OM0|1|E, 6QZP|1|L7, 6XA1|1|L7, 6Y0G|1|L7, 6Y2L|1|L7, 6Y57|1|L7, 6Y6X|1|L7, 6Z6L|1|L7, 6Z6M|1|L7, 6Z6N|1|L7, 6ZM7|1|L7, 6ZME|1|L7, 6ZMI|1|L7, 6ZMO|1|L7, 7BHP|1|L7, 7F5S|1|L7, 7OW7|1|B, 7QVP|1|L7, 7QVP|1|L9, 7XNX|1|L2, 7XNY|1|L2, 8A3D|1|B | (6) 8G5Y|1|L7, 8G5Z|1|L7, 8G60|1|L7, 8G61|1|L7, 8G6J|1|L7, 8GLP|1|L7 | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_52752.17 | NR_3.5_52752.18 | 3.291 | (36) 5AJ0|1|A4, 6LQM|1|5, 6LSR|1|5, 6LSS|1|5, 6LU8|1|5, 6OLE|1|E, 6OLG|1|A4, 6OLI|1|E, 6OM0|1|E, 6QZP|1|L7, 6XA1|1|L7, 6Y0G|1|L7, 6Y2L|1|L7, 6Y57|1|L7, 6Y6X|1|L7, 6Z6L|1|L7, 6Z6M|1|L7, 6Z6N|1|L7, 6ZM7|1|L7, 6ZME|1|L7, 6ZMI|1|L7, 6ZMO|1|L7, 7BHP|1|L7, 7F5S|1|L7, 7OW7|1|B, 7QVP|1|L7, 7QVP|1|L9, 7XNX|1|L2, 7XNY|1|L2, 8A3D|1|B, 8G5Y|1|L7, 8G5Z|1|L7, 8G60|1|L7, 8G61|1|L7, 8G6J|1|L7, 8GLP|1|L7 | (0) | (13) 8FL0|1|L4, 8FL2|1|L4, 8FL3|1|L4, 8FL4|1|L4, 8FL6|1|L4, 8FL7|1|L4, 8FL9|1|L4, 8FLA|1|L4, 8FLB|1|L4, 8FLC|1|L4, 8FLD|1|L4, 8FLE|1|L4, 8FLF|1|L4 |
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 | 6LSS|1|5 | Cryo-EM structure of a pre-60S ribosomal subunit - state preA | ELECTRON MICROSCOPY | 3.23 | 120 | |
| 2 | 6LU8|1|5 | Cryo-EM structure of a human pre-60S ribosomal subunit - state A | ELECTRON MICROSCOPY | 3.13 | 120 | |
| 3 | 6LSR|1|5 | Cryo-EM structure of a pre-60S ribosomal subunit - state B | ELECTRON MICROSCOPY | 3.13 | 120 | |
| 4 | 6LQM|1|5 | Cryo-EM structure of a pre-60S ribosomal subunit - state C | ELECTRON MICROSCOPY | 3.09 | 120 | |
| 5 | 7XNX|1|L2 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells | ELECTRON MICROSCOPY | 2.7 | 120 | |
| 6 | 7XNY|1|L2 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells | ELECTRON MICROSCOPY | 2.5 | 120 | |
| 7 | 6ZME|1|L7 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex | ELECTRON MICROSCOPY | 3 | 120 | |
| 8 | 6ZMO|1|L7 | SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complex | ELECTRON MICROSCOPY | 3.1 | 120 | |
| 9 | 6ZM7|1|L7 | SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complex | ELECTRON MICROSCOPY | 2.7 | 120 | |
| 10 | 6ZMI|1|L7 | SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complex | ELECTRON MICROSCOPY | 2.6 | 120 | |
| 11 | 6Z6M|1|L7 | Cryo-EM structure of human 80S ribosomes bound to EBP1, eEF2 and SERBP1 | ELECTRON MICROSCOPY | 3.1 | 120 | |
| 12 | 6Z6N|1|L7 | Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1) | ELECTRON MICROSCOPY | 2.9 | 120 | |
| 13 | 6Z6L|1|L7 | Cryo-EM structure of human CCDC124 bound to 80S ribosomes | ELECTRON MICROSCOPY | 3 | 120 | |
| 14 | 6Y6X|1|L7 | Tetracenomycin X bound to the human ribosome | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 15 | 6XA1|1|L7 | Structure of a drug-like compound stalled human translation termination complex | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 16 | 6QZP|1|L7 | High-resolution cryo-EM structure of the human 80S ribosome | ELECTRON MICROSCOPY | 2.9 | 120 | |
| 17 | 7OW7|1|B | EIF6-bound large subunit of the human ribosome | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 18 | 7F5S|1|L7 | human delta-METTL18 60S ribosome | ELECTRON MICROSCOPY | 2.72 | 120 | |
| 19 | 8A3D|1|B | Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 20 | 8GLP|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure) | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 21 | 8G5Y|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state) | ELECTRON MICROSCOPY | 2.29 | 120 | |
| 22 | 8G60|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state) | ELECTRON MICROSCOPY | 2.54 | 120 | |
| 23 | 8G6J|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2) | ELECTRON MICROSCOPY | 2.8 | 120 | |
| 24 | 8G5Z|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state) | ELECTRON MICROSCOPY | 2.64 | 120 | |
| 25 | 8G61|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state) | ELECTRON MICROSCOPY | 2.94 | 120 | |
| 26 | 7QVP|1|L7 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | ELECTRON MICROSCOPY | 3 | 120 | |
| 27 | 6Y2L|1|L7 | Structure of human ribosome in POST state | ELECTRON MICROSCOPY | 3 | 120 | |
| 28 | 6Y0G|1|L7 | Structure of human ribosome in classical-PRE state | ELECTRON MICROSCOPY | 3.2 | 120 | |
| 29 | 6Y57|1|L7 | Structure of human ribosome in hybrid-PRE state | ELECTRON MICROSCOPY | 3.5 | 120 | |
| 30 | 7QVP|1|L9 | Human collided disome (di-ribosome) stalled on XBP1 mRNA | ELECTRON MICROSCOPY | 3 | 120 | |
| 31 | 6OM0|1|E | Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAs | ELECTRON MICROSCOPY | 3.1 | 119 | |
| 32 | 6OLE|1|E | Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAs | ELECTRON MICROSCOPY | 3.1 | 119 | |
| 33 | 6OLI|1|E | Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule (USO1-RNC) | ELECTRON MICROSCOPY | 3.5 | 119 | |
| 34 | 6OLG|1|A4 | Human ribosome nascent chain complex stalled by a drug-like small molecule (CDH1_RNC with PP tRNA) | ELECTRON MICROSCOPY | 3.4 | 119 | |
| 35 | 5AJ0|1|A4 | Cryo electron microscopy of actively translating human polysomes (POST state). | ELECTRON MICROSCOPY | 3.5 | 119 | |
| 36 | 7BHP|1|L7 | Cryo-EM structure of the human Ebp1 - 80S ribosome | ELECTRON MICROSCOPY | 3.3 | 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.
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