Equivalence class NR_3.5_10255.20 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7O7Y|1|B7 (rep) | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution) | Electron microscopy | 2.2 | 2021-06-02 |
| 2 | 7O7Z|1|B7 | 5S ribosomal RNA | 5S | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot) | Electron microscopy | 2.4 | 2021-06-02 |
| 3 | 7OBR|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | RNC-SRP early complex | Electron microscopy | 2.8 | 2021-07-21 |
| 4 | 6SGC|1|74 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome stalled on a poly(A) tail | Electron microscopy | 2.8 | 2019-12-04 |
| 5 | 7O80|1|B7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site | Electron microscopy | 2.9 | 2021-06-02 |
| 6 | 6R5Q|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | Electron microscopy | 3 | 2019-07-10 |
| 7 | 6R6P|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | Electron microscopy | 3.1 | 2019-07-10 |
| 8 | 7NWI|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin S | Electron microscopy | 3.13 | 2021-07-07 |
| 9 | 6P5K|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | Electron microscopy | 3.1 | 2019-09-18 |
| 10 | 7O81|1|B7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot | Electron microscopy | 3.1 | 2021-06-02 |
| 11 | 6P5J|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | Electron microscopy | 3.1 | 2019-09-18 |
| 12 | 6P5I|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | Electron microscopy | 3.1 | 2019-09-18 |
| 13 | 6T59|1|74 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complex | Electron microscopy | 3.11 | 2019-11-27 |
| 14 | 7NFX|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state A | Electron microscopy | 3.2 | 2021-06-02 |
| 15 | 6P5N|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 | Electron microscopy | 3.2 | 2019-09-25 |
| 16 | 7MDZ|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | 80S rabbit ribosome stalled with benzamide-CHX | Electron microscopy | 3.2 | 2021-09-01 |
| 17 | 6D9J|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 18 | 5LZS|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | Electron microscopy | 3.31 | 2016-11-30 |
| 19 | 5LZV|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | Electron microscopy | 3.35 | 2016-11-30 |
| 20 | 6MTD|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | Electron microscopy | 3.3 | 2018-11-21 |
| 21 | 6ZVK|1|d2 | 5S ribosomal RNA | 5S RIBOSOMAL RNA | Oryctolagus cuniculus | Eukarya | RF00001 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | Electron microscopy | 3.49 | 2020-12-23 |
| 22 | 6MTE|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 23 | 5LZZ|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | Electron microscopy | 3.47 | 2016-11-30 |
| 24 | 6MTC|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 25 | 6D90|1|7 | 5S ribosomal RNA | 5S rRNA | Oryctolagus cuniculus | Eukarya | RF00001 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 26 | 6GZ5|1|A4 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3) | Electron microscopy | 3.5 | 2018-12-05 |
| 27 | 3JAH|1|7 | 5S ribosomal RNA | 5S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF00001 | Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codon | Electron microscopy | 3.45 | 2015-08-12 |
Release history
| Release | 3.194 | 3.195 | 3.196 | 3.197 | 3.198 | 3.199 | 3.200 | 3.201 | 3.202 | 3.203 | 3.204 | 3.205 | 3.206 | 3.207 | 3.208 | 3.209 | 3.210 | 3.211 | 3.212 | 3.213 | 3.214 | 3.215 | 3.216 | 3.217 | 3.218 | 3.219 | 3.220 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2021-09-01 | 2021-09-08 | 2021-09-15 | 2021-09-22 | 2021-09-29 | 2021-10-06 | 2021-10-13 | 2021-10-20 | 2021-10-27 | 2021-11-03 | 2021-11-10 | 2021-11-17 | 2021-11-24 | 2021-12-01 | 2021-12-08 | 2021-12-15 | 2021-12-22 | 2021-12-29 | 2022-01-05 | 2022-01-12 | 2022-01-19 | 2022-01-26 | 2022-02-02 | 2022-02-09 | 2022-02-16 | 2022-02-23 | 2022-03-02 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_10255.20 | NR_3.5_10255.19 | 3.194 | (26) 6MTD|1|7, 6MTC|1|7, 6GZ5|1|A4, 6D9J|1|7, 6D90|1|7, 5LZZ|1|7, 5LZV|1|7, 5LZS|1|7, 3JAH|1|7, 7OBR|1|7, 7O81|1|B7, 7O80|1|B7, 7O7Z|1|B7, 7O7Y|1|B7, 7NWI|1|7, 7NFX|1|7, 6ZVK|1|d2, 6T59|1|74, 6SGC|1|74, 6R6P|1|7, 6R5Q|1|7, 6P5N|1|7, 6P5K|1|7, 6P5J|1|7, 6P5I|1|7, 6MTE|1|7 | (1) 7MDZ|1|7 | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_10255.20 | NR_3.5_10255.21 | 3.221 | (27) 6D90|1|7, 6P5K|1|7, 7NFX|1|7, 5LZZ|1|7, 6P5J|1|7, 7MDZ|1|7, 5LZV|1|7, 6P5I|1|7, 6ZVK|1|d2, 7OBR|1|7, 5LZS|1|7, 6MTE|1|7, 6T59|1|74, 7O81|1|B7, 3JAH|1|7, 6MTD|1|7, 6SGC|1|74, 7O80|1|B7, 6MTC|1|7, 6R6P|1|7, 7O7Z|1|B7, 6GZ5|1|A4, 6R5Q|1|7, 7O7Y|1|B7, 6D9J|1|7, 6P5N|1|7, 7NWI|1|7 | (0) | (2) 7QWS|1|7, 7QWR|1|7 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 6ZVK|1|d2 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | ELECTRON MICROSCOPY | 3.49 | 120 |
| 2 | 6GZ5|1|A4 | tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3) | ELECTRON MICROSCOPY | 3.5 | 119 |
| 3 | 7O81|1|B7 | Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot | ELECTRON MICROSCOPY | 3.1 | 119 |
| 4 | 7O80|1|B7 | Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site | ELECTRON MICROSCOPY | 2.9 | 119 |
| 5 | 6SGC|1|74 | Rabbit 80S ribosome stalled on a poly(A) tail | ELECTRON MICROSCOPY | 2.8 | 119 |
| 6 | 7O7Z|1|B7 | Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot) | ELECTRON MICROSCOPY | 2.4 | 119 |
| 7 | 7O7Y|1|B7 | Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution) | ELECTRON MICROSCOPY | 2.2 | 119 |
| 8 | 6P5I|1|7 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | ELECTRON MICROSCOPY | 3.1 | 119 |
| 9 | 6P5K|1|7 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | ELECTRON MICROSCOPY | 3.1 | 119 |
| 10 | 6P5J|1|7 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | ELECTRON MICROSCOPY | 3.1 | 119 |
| 11 | 6T59|1|74 | Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complex | ELECTRON MICROSCOPY | 3.11 | 120 |
| 12 | 5LZV|1|7 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | ELECTRON MICROSCOPY | 3.35 | 120 |
| 13 | 5LZS|1|7 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | ELECTRON MICROSCOPY | 3.31 | 119 |
| 14 | 5LZZ|1|7 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | ELECTRON MICROSCOPY | 3.47 | 120 |
| 15 | 3JAH|1|7 | Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codon | ELECTRON MICROSCOPY | 3.45 | 120 |
| 16 | 6MTE|1|7 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | ELECTRON MICROSCOPY | 3.4 | 120 |
| 17 | 6MTD|1|7 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | ELECTRON MICROSCOPY | 3.3 | 120 |
| 18 | 6MTC|1|7 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | ELECTRON MICROSCOPY | 3.4 | 120 |
| 19 | 7MDZ|1|7 | 80S rabbit ribosome stalled with benzamide-CHX | ELECTRON MICROSCOPY | 3.2 | 119 |
| 20 | 6R5Q|1|7 | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | ELECTRON MICROSCOPY | 3 | 120 |
| 21 | 6R6P|1|7 | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | ELECTRON MICROSCOPY | 3.1 | 120 |
| 22 | 7NFX|1|7 | Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state A | ELECTRON MICROSCOPY | 3.2 | 120 |
| 23 | 7OBR|1|7 | RNC-SRP early complex | ELECTRON MICROSCOPY | 2.8 | 120 |
| 24 | 6P5N|1|7 | Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 | ELECTRON MICROSCOPY | 3.2 | 119 |
| 25 | 6D90|1|7 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 119 |
| 26 | 7NWI|1|7 | Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin S | ELECTRON MICROSCOPY | 3.13 | 120 |
| 27 | 6D9J|1|7 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 119 |