Equivalence class NR_3.5_06650.16 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6SGC|1|54+ 6SGC|1|84 (rep) | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Rabbit 80S ribosome stalled on a poly(A) tail | Electron microscopy | 2.8 | 2019-12-04 |
| 2 | 6R5Q|1|5+ 6R5Q|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | Electron microscopy | 3 | 2019-07-10 |
| 3 | 6R6P|1|5+ 6R6P|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | Electron microscopy | 3.1 | 2019-07-10 |
| 4 | 6P5I|1|5+ 6P5I|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | Electron microscopy | 3.1 | 2019-09-18 |
| 5 | 6P5J|1|5+ 6P5J|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | Electron microscopy | 3.1 | 2019-09-18 |
| 6 | 6P5K|1|5+ 6P5K|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | Electron microscopy | 3.1 | 2019-09-18 |
| 7 | 6ZVK|1|e2+ 6ZVK|1|h2 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S RIBOSOMAL RNA, 5.8S RIBOSOMAL RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | Electron microscopy | 3.49 | 2020-12-23 |
| 8 | 6P5N|1|5+ 6P5N|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | 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 |
| 9 | 6D9J|1|5+ 6D9J|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 10 | 6T59|1|54+ 6T59|1|84 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | 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 |
| 11 | 5LZS|1|5+ 5LZS|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | Electron microscopy | 3.31 | 2016-11-30 |
| 12 | 5LZV|1|5+ 5LZV|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | Electron microscopy | 3.35 | 2016-11-30 |
| 13 | 6MTD|1|5+ 6MTD|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | Electron microscopy | 3.3 | 2018-11-21 |
| 14 | 6D90|1|5+ 6D90|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 15 | 6MTE|1|5+ 6MTE|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 16 | 6MTC|1|5+ 6MTC|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S rRNA, 5.8S rRNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 17 | 6GZ5|1|A2+ 6GZ5|1|A3 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | 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 |
| 18 | 5LZZ|1|5+ 5LZZ|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | Electron microscopy | 3.47 | 2016-11-30 |
| 19 | 3JAH|1|5+ 3JAH|1|8 | Large subunit ribosomal RNA + 5.8S ribosomal RNA | 28S ribosomal RNA, 5.8S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF02543 + RF00002 | 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 | 3.159 | 3.160 | 3.161 | 3.162 | 3.163 | 3.164 | 3.165 | 3.166 | 3.167 | 3.168 | 3.169 | 3.170 | 3.171 | 3.172 | 3.173 | 3.174 | 3.175 | 3.176 | 3.177 | 3.178 | 3.179 | 3.180 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2020-12-30 | 2021-01-06 | 2021-01-13 | 2021-01-20 | 2021-01-27 | 2021-02-03 | 2021-02-10 | 2021-02-17 | 2021-02-24 | 2021-03-03 | 2021-03-10 | 2021-03-17 | 2021-03-24 | 2021-03-31 | 2021-04-07 | 2021-04-14 | 2021-04-21 | 2021-04-28 | 2021-05-05 | 2021-05-12 | 2021-05-19 | 2021-05-26 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_06650.16 | NR_3.5_06650.15 | 3.159 | (19) 3JAH|1|5+3JAH|1|8, 5LZS|1|5+5LZS|1|8, 5LZV|1|5+5LZV|1|8, 5LZZ|1|5+5LZZ|1|8, 6D90|1|5+6D90|1|8, 6D9J|1|5+6D9J|1|8, 6GZ5|1|A2+6GZ5|1|A3, 6MTC|1|5+6MTC|1|8, 6MTD|1|5+6MTD|1|8, 6MTE|1|5+6MTE|1|8, 6P5I|1|5+6P5I|1|8, 6P5J|1|5+6P5J|1|8, 6P5K|1|5+6P5K|1|8, 6P5N|1|5+6P5N|1|8, 6R5Q|1|5+6R5Q|1|8, 6R6P|1|5+6R6P|1|8, 6SGC|1|54+6SGC|1|84, 6T59|1|54+6T59|1|84, 6ZVK|1|e2+6ZVK|1|h2 | (0) | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_06650.16 | NR_3.5_06650.17 | 3.181 | (19) 3JAH|1|5+3JAH|1|8, 5LZS|1|5+5LZS|1|8, 5LZV|1|5+5LZV|1|8, 5LZZ|1|5+5LZZ|1|8, 6D90|1|5+6D90|1|8, 6D9J|1|5+6D9J|1|8, 6GZ5|1|A2+6GZ5|1|A3, 6MTC|1|5+6MTC|1|8, 6MTD|1|5+6MTD|1|8, 6MTE|1|5+6MTE|1|8, 6P5I|1|5+6P5I|1|8, 6P5J|1|5+6P5J|1|8, 6P5K|1|5+6P5K|1|8, 6P5N|1|5+6P5N|1|8, 6R5Q|1|5+6R5Q|1|8, 6R6P|1|5+6R6P|1|8, 6SGC|1|54+6SGC|1|84, 6T59|1|54+6T59|1|84, 6ZVK|1|e2+6ZVK|1|h2 | (0) | (5) 7NFX|1|5+7NFX|1|8, 7O7Y|1|B5+7O7Y|1|B8, 7O7Z|1|B5+7O7Z|1|B8, 7O80|1|B5+7O80|1|B8, 7O81|1|B5+7O81|1|B8 |
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 | 6D9J|1|5+ 6D9J|1|8 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 3594 | |
| 2 | 6D90|1|5+ 6D90|1|8 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 3594 | |
| 3 | 6P5N|1|5+ 6P5N|1|8 | Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 | ELECTRON MICROSCOPY | 3.2 | 3594 | |
| 4 | 6MTE|1|5+ 6MTE|1|8 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | ELECTRON MICROSCOPY | 3.4 | 3497 | |
| 5 | 6MTD|1|5+ 6MTD|1|8 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | ELECTRON MICROSCOPY | 3.3 | 3497 | |
| 6 | 6MTC|1|5+ 6MTC|1|8 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | ELECTRON MICROSCOPY | 3.4 | 3497 | |
| 7 | 6SGC|1|54+ 6SGC|1|84 | Rabbit 80S ribosome stalled on a poly(A) tail | ELECTRON MICROSCOPY | 2.8 | 3603 | |
| 8 | 5LZZ|1|5+ 5LZZ|1|8 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | ELECTRON MICROSCOPY | 3.47 | 3543 | |
| 9 | 5LZS|1|5+ 5LZS|1|8 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | ELECTRON MICROSCOPY | 3.31 | 3543 | |
| 10 | 5LZV|1|5+ 5LZV|1|8 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | ELECTRON MICROSCOPY | 3.35 | 3543 | |
| 11 | 6R5Q|1|5+ 6R5Q|1|8 | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | ELECTRON MICROSCOPY | 3 | 3543 | |
| 12 | 6T59|1|54+ 6T59|1|84 | Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complex | ELECTRON MICROSCOPY | 3.11 | 3543 | |
| 13 | 6P5K|1|5+ 6P5K|1|8 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | ELECTRON MICROSCOPY | 3.1 | 3594 | |
| 14 | 6P5I|1|5+ 6P5I|1|8 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | ELECTRON MICROSCOPY | 3.1 | 3594 | |
| 15 | 6P5J|1|5+ 6P5J|1|8 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | ELECTRON MICROSCOPY | 3.1 | 3594 | |
| 16 | 6GZ5|1|A2+ 6GZ5|1|A3 | tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3) | ELECTRON MICROSCOPY | 3.5 | 3612 | |
| 17 | 6R6P|1|5+ 6R6P|1|8 | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | ELECTRON MICROSCOPY | 3.1 | 3662 | |
| 18 | 3JAH|1|5+ 3JAH|1|8 | Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codon | ELECTRON MICROSCOPY | 3.45 | 3662 | |
| 19 | 6ZVK|1|e2+ 6ZVK|1|h2 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | ELECTRON MICROSCOPY | 3.49 | 3920 |
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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