Equivalence class NR_all_41610.16 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8BUU|1|A (rep) | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | ARE-ABCF VmlR2 bound to a 70S ribosome | Electron microscopy | 2.9 | 2023-04-05 |
| 2 | 6TPQ|1|U | Large subunit ribosomal RNA | pre-23S rRNA | Bacillus subtilis | Bacteria | RF02541 | RNase M5 bound to 50S ribosome with precursor 5S rRNA | Electron microscopy | 3.07 | 2020-09-30 |
| 3 | 7AQD|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Structure of the bacterial RQC complex (Translocating State) | Electron microscopy | 3.1 | 2020-11-25 |
| 4 | 7AQC|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Structure of the bacterial RQC complex (Decoding State) | Electron microscopy | 2.99 | 2020-11-25 |
| 5 | 6TNN|1|U | Large subunit ribosomal RNA | pre-23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA | Electron microscopy | 3.07 | 2020-09-30 |
| 6 | 7AS8|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis ribosome quality control complex state B. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO | Electron microscopy | 2.9 | 2020-12-09 |
| 7 | 6HA1|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis | Bacteria | RF02541 | Cryo-EM structure of a 70S Bacillus subtilis ribosome translating the ErmD leader peptide in complex with telithromycin | Electron microscopy | 3.1 | 2018-08-29 |
| 8 | 7O5B|1|X | Large subunit ribosomal RNA | 23S rRNA (2887-MER) | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Cryo-EM structure of a Bacillus subtilis MifM-stalled ribosome-nascent chain complex with (p)ppGpp-SRP bound | Electron microscopy | 3.33 | 2022-02-02 |
| 9 | 7OPE|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | RqcH DR variant bound to 50S-peptidyl-tRNA-RqcP RQC complex (rigid body refinement) | Electron microscopy | 3.2 | 2021-07-21 |
| 10 | 7QV1|1|V | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis collided disome (Leading 70S) | Electron microscopy | 3.5 | 2022-03-09 |
| 11 | 7QV2|1|V | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis collided disome (Collided 70S) | Electron microscopy | 3.5 | 2022-03-09 |
| 12 | 7AS9|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis ribosome-associated quality control complex state A. Ribosomal 50S subunit with peptidyl tRNA in the A/P position and RqcH. | Electron microscopy | 3.5 | 2020-12-23 |
| 13 | 6HA8|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome | Electron microscopy | 3.5 | 2018-08-29 |
| 14 | 7SAE|1|A | Large subunit ribosomal RNA | RNA (2434-MER) | Bacillus subtilis | Bacteria | RF02541 | 44SR70P Class1 ribosomal particle | Electron microscopy | 3 | 2022-03-02 |
| 15 | 5NJT|1|U | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis | Bacteria | RF02541 | Structure of the Bacillus subtilis hibernating 100S ribosome reveals the basis for 70S dimerization. | Electron microscopy | 3.8 | 2017-06-14 |
| 16 | 3J9W|1|BA | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis | Bacteria | RF02541 | Cryo-EM structure of the Bacillus subtilis MifM-stalled ribosome complex | Electron microscopy | 3.9 | 2015-04-29 |
| 17 | 7S9U|1|A | Large subunit ribosomal RNA | RNA (2436-MER) | Bacillus subtilis | Bacteria | RF02541 | 44SR3C ribosomal particle | Electron microscopy | 3.2 | 2022-03-02 |
| 18 | 6PPF|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Bacterial 45SRbgA ribosomal particle class B | Electron microscopy | 3.4 | 2019-09-18 |
| 19 | 6PVK|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Bacterial 45SRbgA ribosomal particle class A | Electron microscopy | 3.4 | 2019-09-18 |
| 20 | 6HTQ|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis | Bacteria | RF02541 | Stringent response control by a bifunctional RelA enzyme in the presence and absence of the ribosome | Electron microscopy | 4.5 | 2019-10-23 |
| 21 | 7QGU|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Structure of the B. subtilis disome - stalled 70S ribosome | Electron microscopy | 4.75 | 2022-03-16 |
| 22 | 6PPK|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | RbgA+45SRbgA complex | Electron microscopy | 4.4 | 2019-09-18 |
| 23 | 7QV3|1|V | Large subunit ribosomal RNA | 23S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis MutS2-collided disome complex (MutS2 conf.2; Leading 70S) | Electron microscopy | 5.14 | 2022-03-09 |
| 24 | 7QH4|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis | Bacteria | RF02541 | Structure of the B. subtilis disome - collided 70S ribosome | Electron microscopy | 5.45 | 2022-03-16 |
| 25 | 7ASA|1|A | Large subunit ribosomal RNA | 23S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF02541 | Bacillus subtilis ribosome-associated quality control complex state B, multibody refinement focussed on RqcH. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO | Electron microscopy | 3.5 | 2020-12-23 |
| 26 | 3J3W|1|A | Large subunit ribosomal RNA | ribosome RNA 23S | Bacillus subtilis | Bacteria | RF02541 | Atomic model of the immature 50S subunit from Bacillus subtilis (state II-a) | Electron microscopy | 10.7 | 2013-06-12 |
| 27 | 3J3V|1|A | Large subunit ribosomal RNA | ribosome RNA 23S | Bacillus subtilis | Bacteria | RF02541 | Atomic model of the immature 50S subunit from Bacillus subtilis (state I-a) | Electron microscopy | 13.3 | 2013-06-12 |
Release history
| Release | 3.277 | 3.278 | 3.279 | 3.280 | 3.281 | 3.282 | 3.283 | 3.284 | 3.285 | 3.286 | 3.287 | 3.288 | 3.289 | 3.290 | 3.291 | 3.292 | 3.293 | 3.294 | 3.295 | 3.296 | 3.297 | 3.298 | 3.299 | 3.300 | 3.301 | 3.302 | 3.303 | 3.304 | 3.305 | 3.306 | 3.307 | 3.308 | 3.309 | 3.310 | 3.311 | 3.312 | 3.313 | 3.314 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2023-04-05 | 2023-04-12 | 2023-04-19 | 2023-04-26 | 2023-05-03 | 2023-05-10 | 2023-05-17 | 2023-05-24 | 2023-05-31 | 2023-06-07 | 2023-06-14 | 2023-06-21 | 2023-06-28 | 2023-07-05 | 2023-07-12 | 2023-07-19 | 2023-07-26 | 2023-08-02 | 2023-08-09 | 2023-08-16 | 2023-08-23 | 2023-08-30 | 2023-09-06 | 2023-09-13 | 2023-09-20 | 2023-09-27 | 2023-10-04 | 2023-10-11 | 2023-10-18 | 2023-10-25 | 2023-11-01 | 2023-11-08 | 2023-11-15 | 2023-11-24 | 2023-11-29 | 2023-12-06 | 2023-12-13 | 2023-12-20 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_41610.16 | NR_all_41610.15 | 3.277 | (26) 7SAE|1|A, 7S9U|1|A, 7QV3|1|V, 7QV2|1|V, 7QV1|1|V, 7QH4|1|A, 7QGU|1|A, 7OPE|1|A, 7O5B|1|X, 7ASA|1|A, 7AS9|1|A, 7AS8|1|A, 7AQD|1|A, 7AQC|1|A, 6TPQ|1|U, 6TNN|1|U, 6PVK|1|A, 6PPK|1|A, 6PPF|1|A, 6HTQ|1|A, 6HA8|1|A, 6HA1|1|A, 5NJT|1|U, 3J9W|1|BA, 3J3W|1|A, 3J3V|1|A | (1) 8BUU|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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 | 3J3W|1|A | Atomic model of the immature 50S subunit from Bacillus subtilis (state II-a) | ELECTRON MICROSCOPY | 10.7 | 2685 |
| 2 | 3J3V|1|A | Atomic model of the immature 50S subunit from Bacillus subtilis (state I-a) | ELECTRON MICROSCOPY | 13.3 | 2884 |
| 3 | 7QV2|1|V | Bacillus subtilis collided disome (Collided 70S) | ELECTRON MICROSCOPY | 3.5 | 2887 |
| 4 | 6PPF|1|A | Bacterial 45SRbgA ribosomal particle class B | ELECTRON MICROSCOPY | 3.4 | 2471 |
| 5 | 6PVK|1|A | Bacterial 45SRbgA ribosomal particle class A | ELECTRON MICROSCOPY | 3.4 | 2169 |
| 6 | 7S9U|1|A | 44SR3C ribosomal particle | ELECTRON MICROSCOPY | 3.2 | 2436 |
| 7 | 7SAE|1|A | 44SR70P Class1 ribosomal particle | ELECTRON MICROSCOPY | 3 | 2434 |
| 8 | 6TNN|1|U | Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA | ELECTRON MICROSCOPY | 3.07 | 2930 |
| 9 | 6TPQ|1|U | RNase M5 bound to 50S ribosome with precursor 5S rRNA | ELECTRON MICROSCOPY | 3.07 | 2924 |
| 10 | 7QV3|1|V | Bacillus subtilis MutS2-collided disome complex (MutS2 conf.2; Leading 70S) | ELECTRON MICROSCOPY | 5.14 | 2887 |
| 11 | 7QV1|1|V | Bacillus subtilis collided disome (Leading 70S) | ELECTRON MICROSCOPY | 3.5 | 2887 |
| 12 | 7QGU|1|A | Structure of the B. subtilis disome - stalled 70S ribosome | ELECTRON MICROSCOPY | 4.75 | 2923 |
| 13 | 3J9W|1|BA | Cryo-EM structure of the Bacillus subtilis MifM-stalled ribosome complex | ELECTRON MICROSCOPY | 3.9 | 2923 |
| 14 | 7QH4|1|A | Structure of the B. subtilis disome - collided 70S ribosome | ELECTRON MICROSCOPY | 5.45 | 2923 |
| 15 | 5NJT|1|U | Structure of the Bacillus subtilis hibernating 100S ribosome reveals the basis for 70S dimerization. | ELECTRON MICROSCOPY | 3.8 | 2923 |
| 16 | 7AQD|1|A | Structure of the bacterial RQC complex (Translocating State) | ELECTRON MICROSCOPY | 3.1 | 2918 |
| 17 | 7AQC|1|A | Structure of the bacterial RQC complex (Decoding State) | ELECTRON MICROSCOPY | 2.99 | 2820 |
| 18 | 6PPK|1|A | RbgA+45SRbgA complex | ELECTRON MICROSCOPY | 4.4 | 2658 |
| 19 | 7O5B|1|X | Cryo-EM structure of a Bacillus subtilis MifM-stalled ribosome-nascent chain complex with (p)ppGpp-SRP bound | ELECTRON MICROSCOPY | 3.33 | 2887 |
| 20 | 7AS9|1|A | Bacillus subtilis ribosome-associated quality control complex state A. Ribosomal 50S subunit with peptidyl tRNA in the A/P position and RqcH. | ELECTRON MICROSCOPY | 3.5 | 2812 |
| 21 | 8BUU|1|A | ARE-ABCF VmlR2 bound to a 70S ribosome | ELECTRON MICROSCOPY | 2.9 | 2850 |
| 22 | 6HA8|1|A | Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome | ELECTRON MICROSCOPY | 3.5 | 2887 |
| 23 | 6HTQ|1|A | Stringent response control by a bifunctional RelA enzyme in the presence and absence of the ribosome | ELECTRON MICROSCOPY | 4.5 | 2887 |
| 24 | 6HA1|1|A | Cryo-EM structure of a 70S Bacillus subtilis ribosome translating the ErmD leader peptide in complex with telithromycin | ELECTRON MICROSCOPY | 3.1 | 2887 |
| 25 | 7OPE|1|A | RqcH DR variant bound to 50S-peptidyl-tRNA-RqcP RQC complex (rigid body refinement) | ELECTRON MICROSCOPY | 3.2 | 2814 |
| 26 | 7AS8|1|A | Bacillus subtilis ribosome quality control complex state B. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO | ELECTRON MICROSCOPY | 2.9 | 2812 |
| 27 | 7ASA|1|A | Bacillus subtilis ribosome-associated quality control complex state B, multibody refinement focussed on RqcH. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO | ELECTRON MICROSCOPY | 3.5 | 82 |
Coloring options: