Equivalence class NR_2.5_52752.62 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8QYX|1|B2 (rep) | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human 60S ribosomal subunit | Electron microscopy | 1.78 | 119 | 2024-12-11 |
| 2 | 8GLP|1|L7 | 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 | 120 | 2023-04-19 |
| 3 | 9O3W|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human 80S ribosome bound to IDB-001 stalled on MYC nascent chain | Electron microscopy | 1.9 | 120 | 2026-03-04 |
| 4 | 9TV2|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | 80S ribosomes from primary B-cells infected with delta v-snoRNA1 EBV | Electron microscopy | 2.1 | 119 | 2026-07-01 |
| 5 | 9C3H|1|L9 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of the CNOT3-bound human 80S ribosome with tRNA-ARG in the P-site. | Electron microscopy | 2 | 120 | 2024-12-04 |
| 6 | 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 | 120 | 2023-03-08 |
| 7 | 9TT7|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | 80S ribosome of WT EBV infected human B-cells | Electron microscopy | 2.2 | 119 | 2026-07-22 |
| 8 | 9I2D|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | NMT1-NAC bound human RNC with 10 amino acid ARF1-linker | Electron microscopy | 2.19 | 120 | 2026-02-04 |
| 9 | 8QFD|1|7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | UFL1 E3 ligase bound 60S ribosome | Electron microscopy | 2.2 | 119 | 2024-02-21 |
| 10 | 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 | 120 | 2024-07-10 |
| 11 | 9O3Y|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human 80S ribosome bound to IDB-002 stalled on FPAK-containing nascent chain | Electron microscopy | 2.2 | 120 | 2026-03-04 |
| 12 | 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 | 120 | 2024-06-12 |
| 13 | 9O3V|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human 80S ribosome stalled on MYC nascent chain | Electron microscopy | 2.2 | 120 | 2026-03-04 |
| 14 | 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 | 120 | 2023-12-06 |
| 15 | 9SPF|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING N1-METHYLPSEUDOURIDINE | Electron microscopy | 2.4 | 119 | 2026-01-21 |
| 16 | 9S3D|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | NAC bound human RNC with 58 amino acid ARF1-linker | Electron microscopy | 2.32 | 120 | 2026-02-18 |
| 17 | 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 | 120 | 2023-04-19 |
| 18 | 9SPI|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING URIDINE | Electron microscopy | 2.4 | 119 | 2026-01-21 |
| 19 | 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 | 120 | 2024-07-10 |
| 20 | 9S3B|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 1 | Electron microscopy | 2.38 | 120 | 2026-02-18 |
| 21 | 9S3C|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 2 | Electron microscopy | 2.42 | 120 | 2026-02-18 |
| 22 | 9MNC|1|L9 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human 80S ribosome bound to small molecule SW393071 | Electron microscopy | 2.33 | 120 | 2026-06-24 |
| 23 | 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 | 120 | 2023-12-06 |
| 24 | 9QLO|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | NMT1-NAC bound human RNC with full length ARF1 - State 1 | Electron microscopy | 2.47 | 120 | 2026-02-18 |
| 25 | 9PBE|1|L7 | 5S ribosomal RNA | 5S rRNA [Homo sapiens] | Homo sapiens | Eukarya | RF00001 | In situ human 80S ribosome (composite map) | Electron microscopy | 2.19 | 120 | 2025-12-24 |
| 26 | 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 | 120 | 2023-12-06 |
| 27 | 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 | 120 | 2024-07-10 |
| 28 | 9GUL|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of FLuc-XBP1u+ stalled human 60S ribosome nascent chain complex | Electron microscopy | 2.2 | 120 | 2025-09-24 |
| 29 | 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 | 120 | 2024-07-10 |
| 30 | 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 | 120 | 2023-04-05 |
| 31 | 9PKD|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | In situ CHX and HHT treated 80S consensus ribosome | Electron microscopy | 2.42 | 120 | 2026-07-15 |
| 32 | 29IX|1|DB | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human monosomes with bound toxin NT-2, focus on 60S subunit. NT-2 added to purified ribosomes as control. | Electron microscopy | 2.2 | 119 | 2026-09-30 |
| 33 | 8FLE|1|L4 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human nuclear pre-60S ribosomal subunit (State L2) | Electron microscopy | 2.48 | 120 | 2023-07-12 |
| 34 | 9RUC|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | WT-HEK 80S ribosome bound to H2B mRNA (WT-H2B) | Electron microscopy | 2.5 | 119 | 2026-05-13 |
| 35 | 9P8B|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | In situ human eEF1A-A/T-P-E state 80S ribosome | Electron microscopy | 2.48 | 120 | 2025-12-24 |
| 36 | 7OW7|1|B | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | EIF6-bound large subunit of the human ribosome | Electron microscopy | 2.2 | 120 | 2022-10-05 |
| 37 | 29IW|1|DB | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human monosomes with bound toxin NT-2, focus on 60S subunit. Cells treated with NT-2. | Electron microscopy | 1.77 | 119 | 2026-09-30 |
| 38 | 9WW4|1|AB | 5S ribosomal RNA | 5S rRNA (120-MER) | Homo sapiens | Eukarya | RF00001 | human 80S ribosome non-rotated state | Electron microscopy | 2.48 | 120 | 2026-09-16 |
| 39 | 9RPV|1|M7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of the ZAK-bound human disome | Electron microscopy | 2.35 | 120 | 2025-12-10 |
| 40 | 29IZ|1|BB | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Dormant 80S:eEF2:SERBP1:tRNA complex from human cells treated with toxin NT-2 | Electron microscopy | 2.08 | 119 | 2026-09-30 |
| 41 | 9RPV|1|L7 | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Structure of the ZAK-bound human disome | Electron microscopy | 2.35 | 120 | 2025-12-10 |
| 42 | 29IY|1|CB | 5S ribosomal RNA | 5S rRNA | Homo sapiens | Eukarya | RF00001 | Human monosomes, focus on 60S subunit; control. | Electron microscopy | 2.36 | 119 | 2026-09-30 |
Release history
| Release | 4.59 |
|---|---|
| Date | 2026-09-30 |
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 | 9GUL|1|L7 | Structure of FLuc-XBP1u+ stalled human 60S ribosome nascent chain complex | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 2 | 8FLE|1|L4 | Human nuclear pre-60S ribosomal subunit (State L2) | ELECTRON MICROSCOPY | 2.48 | 120 | |
| 3 | 7OW7|1|B | EIF6-bound large subunit of the human ribosome | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 4 | 9RPV|1|L7 | Structure of the ZAK-bound human disome | ELECTRON MICROSCOPY | 2.35 | 120 | |
| 5 | 9QLO|1|L7 | NMT1-NAC bound human RNC with full length ARF1 - State 1 | ELECTRON MICROSCOPY | 2.47 | 120 | |
| 6 | 9S3D|1|L7 | NAC bound human RNC with 58 amino acid ARF1-linker | ELECTRON MICROSCOPY | 2.32 | 120 | |
| 7 | 9S3C|1|L7 | NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 2 | ELECTRON MICROSCOPY | 2.42 | 120 | |
| 8 | 9S3B|1|L7 | NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 1 | ELECTRON MICROSCOPY | 2.38 | 120 | |
| 9 | 9I2D|1|L7 | NMT1-NAC bound human RNC with 10 amino acid ARF1-linker | ELECTRON MICROSCOPY | 2.19 | 120 | |
| 10 | 9RUC|1|L7 | WT-HEK 80S ribosome bound to H2B mRNA (WT-H2B) | ELECTRON MICROSCOPY | 2.5 | 119 | |
| 11 | 9WW4|1|AB | human 80S ribosome non-rotated state | ELECTRON MICROSCOPY | 2.48 | 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 | 8XSX|1|L7 | Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 | ELECTRON MICROSCOPY | 2.4 | 120 | |
| 14 | 8QYX|1|B2 | Human 60S ribosomal subunit | ELECTRON MICROSCOPY | 1.78 | 119 | |
| 15 | 29IZ|1|BB | Dormant 80S:eEF2:SERBP1:tRNA complex from human cells treated with toxin NT-2 | ELECTRON MICROSCOPY | 2.08 | 119 | |
| 16 | 29IW|1|DB | Human monosomes with bound toxin NT-2, focus on 60S subunit. Cells treated with NT-2. | ELECTRON MICROSCOPY | 1.77 | 119 | |
| 17 | 29IX|1|DB | Human monosomes with bound toxin NT-2, focus on 60S subunit. NT-2 added to purified ribosomes as control. | ELECTRON MICROSCOPY | 2.2 | 119 | |
| 18 | 29IY|1|CB | Human monosomes, focus on 60S subunit; control. | ELECTRON MICROSCOPY | 2.36 | 119 | |
| 19 | 9SPI|1|L7 | CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING URIDINE | ELECTRON MICROSCOPY | 2.4 | 119 | |
| 20 | 8YOP|1|L7 | Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 21 | 8YOO|1|L7 | Cryo-EM structure of the human 80S ribosome with 100 um Tigecycline | ELECTRON MICROSCOPY | 2 | 120 | |
| 22 | 8K2C|1|L7 | Cryo-EM structure of the human 80S ribosome with Tigecycline | ELECTRON MICROSCOPY | 2.4 | 120 | |
| 23 | 8A3D|1|B | Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 24 | 9PBE|1|L7 | In situ human 80S ribosome (composite map) | ELECTRON MICROSCOPY | 2.19 | 120 | |
| 25 | 9P8B|1|L7 | In situ human eEF1A-A/T-P-E state 80S ribosome | ELECTRON MICROSCOPY | 2.48 | 120 | |
| 26 | 9PKD|1|L7 | In situ CHX and HHT treated 80S consensus ribosome | ELECTRON MICROSCOPY | 2.42 | 120 | |
| 27 | 8G5Y|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state) | ELECTRON MICROSCOPY | 2.29 | 120 | |
| 28 | 8GLP|1|L7 | mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure) | ELECTRON MICROSCOPY | 1.67 | 120 | |
| 29 | 9O3Y|1|L7 | Human 80S ribosome bound to IDB-002 stalled on FPAK-containing nascent chain | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 30 | 9O3W|1|L7 | Human 80S ribosome bound to IDB-001 stalled on MYC nascent chain | ELECTRON MICROSCOPY | 1.9 | 120 | |
| 31 | 9O3V|1|L7 | Human 80S ribosome stalled on MYC nascent chain | ELECTRON MICROSCOPY | 2.2 | 120 | |
| 32 | 9SPF|1|L7 | CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING N1-METHYLPSEUDOURIDINE | ELECTRON MICROSCOPY | 2.4 | 119 | |
| 33 | 9RPV|1|M7 | Structure of the ZAK-bound human disome | ELECTRON MICROSCOPY | 2.35 | 120 | |
| 34 | 9C3H|1|L9 | Structure of the CNOT3-bound human 80S ribosome with tRNA-ARG in the P-site. | ELECTRON MICROSCOPY | 2 | 120 | |
| 35 | 9MNC|1|L9 | Human 80S ribosome bound to small molecule SW393071 | ELECTRON MICROSCOPY | 2.33 | 120 | |
| 36 | 7XNY|1|L2 | High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells | ELECTRON MICROSCOPY | 2.5 | 120 | |
| 37 | 8JDJ|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU) | ELECTRON MICROSCOPY | 2.5 | 120 | |
| 38 | 8JDK|1|E | Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU) | ELECTRON MICROSCOPY | 2.26 | 120 | |
| 39 | 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 | |
| 40 | 8QFD|1|7 | UFL1 E3 ligase bound 60S ribosome | ELECTRON MICROSCOPY | 2.2 | 119 | |
| 41 | 9TT7|1|L7 | 80S ribosome of WT EBV infected human B-cells | ELECTRON MICROSCOPY | 2.2 | 119 | |
| 42 | 9TV2|1|L7 | 80S ribosomes from primary B-cells infected with delta v-snoRNA1 EBV | ELECTRON MICROSCOPY | 2.1 | 119 |
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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