Equivalence class NR_3.5_97435.16 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8S1P|1|B (rep) | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | YlmH bound to PtRNA-50S | Electron microscopy | 1.96 | 2024-06-12 |
| 2 | 8QCQ|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | B. subtilis ApdA-stalled ribosomal complex | Electron microscopy | 2.3 | 2024-03-20 |
| 3 | 6TPQ|1|V | 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 |
| 4 | 8BUU|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | ARE-ABCF VmlR2 bound to a 70S ribosome | Electron microscopy | 2.9 | 2023-04-05 |
| 5 | 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 |
| 6 | 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 |
| 7 | 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 |
| 8 | 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 |
| 9 | 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 |
| 10 | 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 |
| 11 | 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 |
| 12 | 8S1U|1|B | 5S ribosomal RNA | 5S rRNA | Bacillus subtilis subsp. subtilis str. 168 | Bacteria | RF00001 | YlmH bound to stalled 50S subunits with RqcH and PtRNA | Electron microscopy | 3.4 | 2024-06-12 |
| 13 | 8QPP|1|Y | 5S ribosomal RNA | 5S rRNA (112-MER) | Bacillus subtilis | Bacteria | RF00001 | Bacillus subtilis MutS2-collided disome complex (stalled 70S) | Electron microscopy | 3.4 | 2023-12-27 |
| 14 | 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 |
| 15 | 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 |
| 16 | 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 |
| 17 | 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 |
| 18 | 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 |
Release history
| Release | 3.339 | 3.340 | 3.341 | 3.342 | 3.343 | 3.344 | 3.345 | 3.346 | 3.347 | 3.348 | 3.349 | 3.350 | 3.351 | 3.352 | 3.353 | 3.354 | 3.355 | 3.356 | 3.357 | 3.358 | 3.359 | 3.360 | 3.361 | 3.362 | 3.363 | 3.364 | 3.365 | 3.366 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2024-06-12 | 2024-06-19 | 2024-06-26 | 2024-07-03 | 2024-07-10 | 2024-07-17 | 2024-07-25 | 2024-07-31 | 2024-08-07 | 2024-08-14 | 2024-08-21 | 2024-08-28 | 2024-09-04 | 2024-09-11 | 2024-09-18 | 2024-09-25 | 2024-10-02 | 2024-10-09 | 2024-10-16 | 2024-10-23 | 2024-10-30 | 2024-11-06 | 2024-11-13 | 2024-11-20 | 2024-11-27 | 2024-12-04 | 2024-12-11 | 2024-12-18 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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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 | 8QPP|1|Y | Bacillus subtilis MutS2-collided disome complex (stalled 70S) | ELECTRON MICROSCOPY | 3.4 | 112 | |
| 3 | 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 | |
| 4 | 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 | |
| 5 | 7OPE|1|B | RqcH DR variant bound to 50S-peptidyl-tRNA-RqcP RQC complex (rigid body refinement) | ELECTRON MICROSCOPY | 3.2 | 112 | |
| 6 | 8BUU|1|B | ARE-ABCF VmlR2 bound to a 70S ribosome | ELECTRON MICROSCOPY | 2.9 | 112 | |
| 7 | 8S1U|1|B | YlmH bound to stalled 50S subunits with RqcH and PtRNA | ELECTRON MICROSCOPY | 3.4 | 112 | |
| 8 | 8S1P|1|B | YlmH bound to PtRNA-50S | ELECTRON MICROSCOPY | 1.96 | 112 | |
| 9 | 8QCQ|1|B | B. subtilis ApdA-stalled ribosomal complex | ELECTRON MICROSCOPY | 2.3 | 112 | |
| 10 | 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 | |
| 11 | 6HA8|1|B | Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 12 | 7AQC|1|B | Structure of the bacterial RQC complex (Decoding State) | ELECTRON MICROSCOPY | 2.99 | 112 | |
| 13 | 7AQD|1|B | Structure of the bacterial RQC complex (Translocating State) | ELECTRON MICROSCOPY | 3.1 | 112 | |
| 14 | 7QV2|1|B | Bacillus subtilis collided disome (Collided 70S) | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 15 | 7QV1|1|B | Bacillus subtilis collided disome (Leading 70S) | ELECTRON MICROSCOPY | 3.5 | 112 | |
| 16 | 6TPQ|1|V | RNase M5 bound to 50S ribosome with precursor 5S rRNA | ELECTRON MICROSCOPY | 3.07 | 123 | |
| 17 | 6TNN|1|V | Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA | ELECTRON MICROSCOPY | 3.07 | 116 | |
| 18 | 6PPF|1|B | Bacterial 45SRbgA ribosomal particle class B | ELECTRON MICROSCOPY | 3.4 | 112 |
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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