Equivalence class NR_all_97435.10 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6TPQ|1|V (rep) | 5S ribosomal RNA | pre-5S rRNA | Bacillus subtilis | Bacteria | RF00001 | RNase M5 bound to 50S ribosome with precursor 5S rRNA | Electron microscopy | 3.07 | 2020-09-30 |
| 2 | 7AQC|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | Structure of the bacterial RQC complex (Decoding State) | Electron microscopy | 2.99 | 2020-11-25 |
| 3 | 7AS8|1|B | 5S ribosomal RNA | 5s rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | 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 |
| 4 | 7AQD|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | Structure of the bacterial RQC complex (Translocating State) | Electron microscopy | 3.1 | 2020-11-25 |
| 5 | 6TNN|1|V | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis | Bacteria | RF00001 | Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA | Electron microscopy | 3.07 | 2020-09-30 |
| 6 | 6HA1|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis | Bacteria | RF00001 | 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 |
| 7 | 7OPE|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | RqcH DR variant bound to 50S-peptidyl-tRNA-RqcP RQC complex (rigid body refinement) | Electron microscopy | 3.2 | 2021-07-21 |
| 8 | 7O5B|1|Y | 5S ribosomal RNA | 5S rRNA (112-MER) | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | 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 | 7QV2|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | Bacillus subtilis collided disome (Collided 70S) | Electron microscopy | 3.5 | 2022-03-09 |
| 10 | 7AS9|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | 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 |
| 11 | 7QV1|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | Bacillus subtilis collided disome (Leading 70S) | Electron microscopy | 3.5 | 2022-03-09 |
| 12 | 6HA8|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis | Bacteria | RF00001 | Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome | Electron microscopy | 3.5 | 2018-08-29 |
| 13 | 6PPF|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis | Bacteria | RF00001 | Bacterial 45SRbgA ribosomal particle class B | Electron microscopy | 3.4 | 2019-09-18 |
| 14 | 5NJT|1|V | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis | Bacteria | RF00001 | Structure of the Bacillus subtilis hibernating 100S ribosome reveals the basis for 70S dimerization. | Electron microscopy | 3.8 | 2017-06-14 |
| 15 | 3J9W|1|BB | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis | Bacteria | RF00001 | Cryo-EM structure of the Bacillus subtilis MifM-stalled ribosome complex | Electron microscopy | 3.9 | 2015-04-29 |
| 16 | 6HTQ|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis | Bacteria | RF00001 | Stringent response control by a bifunctional RelA enzyme in the presence and absence of the ribosome | Electron microscopy | 4.5 | 2019-10-23 |
| 17 | 6PPK|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis | Bacteria | RF00001 | RbgA+45SRbgA complex | Electron microscopy | 4.4 | 2019-09-18 |
| 18 | 7QV3|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | Bacillus subtilis MutS2-collided disome complex (MutS2 conf.2; Leading 70S) | Electron microscopy | 5.14 | 2022-03-09 |
| 19 | 3J3V|1|B | 5S ribosomal RNA | ribosome RNA 5S | Bacillus subtilis | Bacteria | RF00001 | Atomic model of the immature 50S subunit from Bacillus subtilis (state I-a) | Electron microscopy | 13.3 | 2013-06-12 |
Release history
| Release | 3.221 |
|---|---|
| Date | 2022-03-09 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_97435.10 | NR_all_97435.9 | 3.221 | (16) 3J3V|1|B, 3J9W|1|BB, 5NJT|1|V, 6HA1|1|B, 6HA8|1|B, 6HTQ|1|B, 6PPF|1|B, 6PPK|1|B, 6TNN|1|V, 6TPQ|1|V, 7AQC|1|B, 7AQD|1|B, 7AS8|1|B, 7AS9|1|B, 7O5B|1|Y, 7OPE|1|B | (3) 7QV1|1|B, 7QV2|1|B, 7QV3|1|B | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_97435.10 | NR_all_97435.11 | 3.222 | (19) 3J3V|1|B, 3J9W|1|BB, 5NJT|1|V, 6HA1|1|B, 6HA8|1|B, 6HTQ|1|B, 6PPF|1|B, 6PPK|1|B, 6TNN|1|V, 6TPQ|1|V, 7AQC|1|B, 7AQD|1|B, 7AS8|1|B, 7AS9|1|B, 7O5B|1|Y, 7OPE|1|B, 7QV1|1|B, 7QV2|1|B, 7QV3|1|B | (0) | (2) 7QGU|1|B, 7QH4|1|B |
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 | 7O5B|1|Y | Cryo-EM structure of a Bacillus subtilis MifM-stalled ribosome-nascent chain complex with (p)ppGpp-SRP bound | ELECTRON MICROSCOPY | 3.33 | 112 | |
| 2 | 7AQD|1|B | Structure of the bacterial RQC complex (Translocating State) | ELECTRON MICROSCOPY | 3.1 | 112 | |
| 3 | 7AQC|1|B | Structure of the bacterial RQC complex (Decoding State) | ELECTRON MICROSCOPY | 2.99 | 112 | |
| 4 | 3J9W|1|BB | Cryo-EM structure of the Bacillus subtilis MifM-stalled ribosome complex | ELECTRON MICROSCOPY | 3.9 | 112 | |
| 5 | 5NJT|1|V | Structure of the Bacillus subtilis hibernating 100S ribosome reveals the basis for 70S dimerization. | ELECTRON MICROSCOPY | 3.8 | 112 | |
| 6 | 6HTQ|1|B | Stringent response control by a bifunctional RelA enzyme in the presence and absence of the ribosome | ELECTRON MICROSCOPY | 4.5 | 112 | |
| 7 | 7AS9|1|B | 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 | 112 | |
| 8 | 7OPE|1|B | RqcH DR variant bound to 50S-peptidyl-tRNA-RqcP RQC complex (rigid body refinement) | ELECTRON MICROSCOPY | 3.2 | 112 | |
| 9 | 7AS8|1|B | Bacillus subtilis ribosome quality control complex state B. Ribosomal 50S subunit with P-tRNA, RqcH, and RqcP/YabO | ELECTRON MICROSCOPY | 2.9 | 112 | |
| 10 | 6HA8|1|B | Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 11 | 6HA1|1|B | Cryo-EM structure of a 70S Bacillus subtilis ribosome translating the ErmD leader peptide in complex with telithromycin | ELECTRON MICROSCOPY | 3.1 | 112 | |
| 12 | 7QV2|1|B | Bacillus subtilis collided disome (Collided 70S) | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 13 | 7QV3|1|B | Bacillus subtilis MutS2-collided disome complex (MutS2 conf.2; Leading 70S) | ELECTRON MICROSCOPY | 5.14 | 112 | |
| 14 | 7QV1|1|B | Bacillus subtilis collided disome (Leading 70S) | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 15 | 6TPQ|1|V | RNase M5 bound to 50S ribosome with precursor 5S rRNA | ELECTRON MICROSCOPY | 3.07 | 123 | |
| 16 | 6TNN|1|V | Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA | ELECTRON MICROSCOPY | 3.07 | 116 | |
| 17 | 6PPF|1|B | Bacterial 45SRbgA ribosomal particle class B | ELECTRON MICROSCOPY | 3.4 | 112 | |
| 18 | 6PPK|1|B | RbgA+45SRbgA complex | ELECTRON MICROSCOPY | 4.4 | 112 | |
| 19 | 3J3V|1|B | Atomic model of the immature 50S subunit from Bacillus subtilis (state I-a) | ELECTRON MICROSCOPY | 13.3 | 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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