Equivalence class NR_3.5_21280.16 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7JQB|1|A (rep) | Small subunit ribosomal RNA | rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | SARS-CoV-2 Nsp1 and rabbit 40S ribosome complex | Electron microscopy | 2.7 | 2020-12-02 |
| 2 | 6SGC|1|A1 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Rabbit 80S ribosome stalled on a poly(A) tail | Electron microscopy | 2.8 | 2019-12-04 |
| 3 | 6YAL|1|2 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Mammalian 48S late-stage initiation complex with beta-globin mRNA | Electron microscopy | 3 | 2020-04-08 |
| 4 | 6R5Q|1|K | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | Electron microscopy | 3 | 2019-07-10 |
| 5 | 6ZVK|1|K3 | Small subunit ribosomal RNA | 18S RIBOSOMAL RNA | Oryctolagus cuniculus | Eukarya | RF01960 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | Electron microscopy | 3.49 | 2020-12-23 |
| 6 | 6P5I|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | Electron microscopy | 3.1 | 2019-09-18 |
| 7 | 6P5K|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | Electron microscopy | 3.1 | 2019-09-18 |
| 8 | 6P5J|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | Electron microscopy | 3.1 | 2019-09-18 |
| 9 | 6P4G|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | Electron microscopy | 3.1 | 2019-09-18 |
| 10 | 6R6P|1|K | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | Electron microscopy | 3.1 | 2019-07-10 |
| 11 | 6P4H|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | Electron microscopy | 3.2 | 2019-09-18 |
| 12 | 6P5N|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | 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 |
| 13 | 6D9J|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 14 | 7JQC|1|A | Small subunit ribosomal RNA | rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | SARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complex | Electron microscopy | 3.3 | 2020-12-02 |
| 15 | 5LZS|1|9 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | Electron microscopy | 3.31 | 2016-11-30 |
| 16 | 6W2T|1|a | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the closed state (Class 2) | Electron microscopy | 3.36 | 2020-04-22 |
| 17 | 6MTD|1|9 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | Electron microscopy | 3.3 | 2018-11-21 |
| 18 | 5LZV|1|9 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | Electron microscopy | 3.35 | 2016-11-30 |
| 19 | 6D90|1|2 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | Electron microscopy | 3.2 | 2018-06-06 |
| 20 | 6YAN|1|2 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Mammalian 48S late-stage translation initiation complex with histone 4 mRNA | Electron microscopy | 3.48 | 2020-04-08 |
| 21 | 6MTC|1|9 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 22 | 6MTE|1|9 | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | Electron microscopy | 3.4 | 2018-11-21 |
| 23 | 6W2S|1|A | Small subunit ribosomal RNA | 18S rRNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the open state (Class 1) | Electron microscopy | 3.47 | 2020-04-22 |
| 24 | 6GZ5|1|B1 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | 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 |
| 25 | 5LZZ|1|9 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | Electron microscopy | 3.47 | 2016-11-30 |
| 26 | 3JAH|1|9 | Small subunit ribosomal RNA | 18S ribosomal RNA | Oryctolagus cuniculus | Eukarya | RF01960 | 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_21280.16 | NR_3.5_21280.15 | 3.159 | (26) 3JAH|1|9, 6P5K|1|2, 6P5N|1|2, 6R5Q|1|K, 6R6P|1|K, 6SGC|1|A1, 6W2S|1|A, 6W2T|1|a, 6YAL|1|2, 6YAN|1|2, 6ZVK|1|K3, 7JQB|1|A, 6P5J|1|2, 6P5I|1|2, 5LZS|1|9, 5LZV|1|9, 5LZZ|1|9, 6D90|1|2, 6D9J|1|2, 6GZ5|1|B1, 6MTC|1|9, 6MTD|1|9, 6MTE|1|9, 6P4G|1|2, 6P4H|1|2, 7JQC|1|A | (0) | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_21280.16 | NR_3.5_21280.17 | 3.181 | (26) 6P5N|1|2, 6W2S|1|A, 6ZVK|1|K3, 5LZZ|1|9, 6MTC|1|9, 6P4H|1|2, 6P5K|1|2, 6SGC|1|A1, 6YAN|1|2, 5LZV|1|9, 6GZ5|1|B1, 6P4G|1|2, 6P5J|1|2, 6R6P|1|K, 6YAL|1|2, 5LZS|1|9, 7JQC|1|A, 6D9J|1|2, 6MTE|1|9, 6R5Q|1|K, 6W2T|1|a, 3JAH|1|9, 7JQB|1|A, 6D90|1|2, 6MTD|1|9, 6P5I|1|2 | (0) | (4) 7O80|1|A2, 7O7Z|1|A2, 7O7Y|1|A2, 7O81|1|A2 |
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 | 6GZ5|1|B1 | tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3) | ELECTRON MICROSCOPY | 3.5 | 1708 |
| 2 | 6ZVK|1|K3 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism | ELECTRON MICROSCOPY | 3.49 | 1869 |
| 3 | 3JAH|1|9 | Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codon | ELECTRON MICROSCOPY | 3.45 | 1719 |
| 4 | 6YAL|1|2 | Mammalian 48S late-stage initiation complex with beta-globin mRNA | ELECTRON MICROSCOPY | 3 | 1743 |
| 5 | 6YAN|1|2 | Mammalian 48S late-stage translation initiation complex with histone 4 mRNA | ELECTRON MICROSCOPY | 3.48 | 1743 |
| 6 | 6D90|1|2 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 1697 |
| 7 | 6P5N|1|2 | Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 | ELECTRON MICROSCOPY | 3.2 | 1697 |
| 8 | 6R6P|1|K | Structure of XBP1u-paused ribosome nascent chain complex (rotated state) | ELECTRON MICROSCOPY | 3.1 | 1698 |
| 9 | 6R5Q|1|K | Structure of XBP1u-paused ribosome nascent chain complex (post-state) | ELECTRON MICROSCOPY | 3 | 1698 |
| 10 | 6MTC|1|9 | Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) | ELECTRON MICROSCOPY | 3.4 | 1664 |
| 11 | 5LZS|1|9 | Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B | ELECTRON MICROSCOPY | 3.31 | 1697 |
| 12 | 5LZV|1|9 | Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. | ELECTRON MICROSCOPY | 3.35 | 1698 |
| 13 | 5LZZ|1|9 | Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) | ELECTRON MICROSCOPY | 3.47 | 1698 |
| 14 | 6SGC|1|A1 | Rabbit 80S ribosome stalled on a poly(A) tail | ELECTRON MICROSCOPY | 2.8 | 1697 |
| 15 | 7JQB|1|A | SARS-CoV-2 Nsp1 and rabbit 40S ribosome complex | ELECTRON MICROSCOPY | 2.7 | 1697 |
| 16 | 7JQC|1|A | SARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complex | ELECTRON MICROSCOPY | 3.3 | 1697 |
| 17 | 6P4H|1|2 | Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | ELECTRON MICROSCOPY | 3.2 | 1697 |
| 18 | 6P4G|1|2 | Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | ELECTRON MICROSCOPY | 3.1 | 1697 |
| 19 | 6P5K|1|2 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) | ELECTRON MICROSCOPY | 3.1 | 1697 |
| 20 | 6P5I|1|2 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) | ELECTRON MICROSCOPY | 3.1 | 1697 |
| 21 | 6P5J|1|2 | Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) | ELECTRON MICROSCOPY | 3.1 | 1697 |
| 22 | 6MTE|1|9 | Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) | ELECTRON MICROSCOPY | 3.4 | 1664 |
| 23 | 6MTD|1|9 | Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) | ELECTRON MICROSCOPY | 3.3 | 1692 |
| 24 | 6W2S|1|A | Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the open state (Class 1) | ELECTRON MICROSCOPY | 3.47 | 1697 |
| 25 | 6W2T|1|a | Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the closed state (Class 2) | ELECTRON MICROSCOPY | 3.36 | 1697 |
| 26 | 6D9J|1|2 | Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. | ELECTRON MICROSCOPY | 3.2 | 1697 |