Equivalence class NR_2.5_18586.59 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8CCS|1|BB (rep) | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | 80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complex | Electron microscopy | 1.97 | 2023-09-20 |
| 2 | 8CDR|1|BB | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | Electron microscopy | 2.04 | 2023-09-20 |
| 3 | 8CEH|1|BB | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Translocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | Electron microscopy | 2.05 | 2023-09-20 |
| 4 | 8EVT|1|A3 | 5S ribosomal RNA | 5s rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) refined against a composite map | Electron microscopy | 2.2 | 2023-09-06 |
| 5 | 8CGN|1|BB | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Non-rotated 80S S. cerevisiae ribosome with ligands | Electron microscopy | 2.28 | 2023-09-20 |
| 6 | 7UOO|1|3 | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae BY4741 | Eukarya | RF00001 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state | Electron microscopy | 2.34 | 2023-03-15 |
| 7 | 8EVP|1|A3 | 5S ribosomal RNA | 5s rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure I | Electron microscopy | 2.38 | 2023-09-06 |
| 8 | 7V08|1|3 | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae BY4741 | Eukarya | RF00001 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a Spb1 D52A suppressor 3 strain | Electron microscopy | 2.36 | 2023-03-15 |
| 9 | 7ZW0|1|LC | 5S ribosomal RNA | 5S ribosomal RNA (RDN5-1) | Saccharomyces cerevisiae W303 | Eukarya | RF00001 | FAP-80S Complex - Rotated state | Electron microscopy | 2.4 | 2022-10-05 |
| 10 | 8AGX|1|h | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Yeast RQC complex in state with the RING domain of Ltn1 in the IN position | Electron microscopy | 2.4 | 2023-03-08 |
| 11 | 7TOP|1|A5S | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Yeast 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein PR20 | Electron microscopy | 2.4 | 2022-05-25 |
| 12 | 8EWC|1|A3 | 5S ribosomal RNA | 5s rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure II | Electron microscopy | 2.45 | 2023-09-06 |
| 13 | 7UQB|1|3 | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae BY4741 | Eukarya | RF00001 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1-D52A strain with AlF4 | Electron microscopy | 2.43 | 2023-03-15 |
| 14 | 8CIV|1|BB | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | Electron microscopy | 2.47 | 2023-09-20 |
| 15 | 7UQZ|1|3 | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae BY4741 | Eukarya | RF00001 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1 D52A strain | Electron microscopy | 2.44 | 2023-03-15 |
| 16 | 7ZUX|1|4 | 5S ribosomal RNA | 5S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Collided ribosome in a disome unit from S. cerevisiae | Electron microscopy | 2.5 | 2023-02-22 |
| 17 | 8AAF|1|h | 5S ribosomal RNA | 5S rRNA | Saccharomyces cerevisiae | Eukarya | RF00001 | Yeast RQC complex in state G | Electron microscopy | 2.5 | 2023-03-08 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_2.5_18586.59 | NR_2.5_18586.58 | 3.301 | (12) 7TOP|1|A5S, 7UOO|1|3, 7UQB|1|3, 7UQZ|1|3, 7V08|1|3, 7ZUX|1|4, 7ZW0|1|LC, 8AAF|1|h, 8AGX|1|h, 8EVP|1|A3, 8EVT|1|A3, 8EWC|1|A3 | (5) 8CCS|1|BB, 8CDR|1|BB, 8CEH|1|BB, 8CGN|1|BB, 8CIV|1|BB | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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 | 8CCS|1|BB | 80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complex | ELECTRON MICROSCOPY | 1.97 | 121 | |
| 2 | 8CEH|1|BB | Translocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | ELECTRON MICROSCOPY | 2.05 | 121 | |
| 3 | 8CDR|1|BB | Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | ELECTRON MICROSCOPY | 2.04 | 121 | |
| 4 | 8CIV|1|BB | Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin | ELECTRON MICROSCOPY | 2.47 | 121 | |
| 5 | 8CGN|1|BB | Non-rotated 80S S. cerevisiae ribosome with ligands | ELECTRON MICROSCOPY | 2.28 | 121 | |
| 6 | 8EVP|1|A3 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure I | ELECTRON MICROSCOPY | 2.38 | 121 | |
| 7 | 8EVT|1|A3 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) refined against a composite map | ELECTRON MICROSCOPY | 2.2 | 121 | |
| 8 | 8EWC|1|A3 | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure II | ELECTRON MICROSCOPY | 2.45 | 121 | |
| 9 | 7ZUX|1|4 | Collided ribosome in a disome unit from S. cerevisiae | ELECTRON MICROSCOPY | 2.5 | 121 | |
| 10 | 7ZW0|1|LC | FAP-80S Complex - Rotated state | ELECTRON MICROSCOPY | 2.4 | 121 | |
| 11 | 8AGX|1|h | Yeast RQC complex in state with the RING domain of Ltn1 in the IN position | ELECTRON MICROSCOPY | 2.4 | 121 | |
| 12 | 8AAF|1|h | Yeast RQC complex in state G | ELECTRON MICROSCOPY | 2.5 | 121 | |
| 13 | 7TOP|1|A5S | Yeast 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein PR20 | ELECTRON MICROSCOPY | 2.4 | 121 | |
| 14 | 7UQB|1|3 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1-D52A strain with AlF4 | ELECTRON MICROSCOPY | 2.43 | 120 | |
| 15 | 7UOO|1|3 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state | ELECTRON MICROSCOPY | 2.34 | 120 | |
| 16 | 7UQZ|1|3 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1 D52A strain | ELECTRON MICROSCOPY | 2.44 | 120 | |
| 17 | 7V08|1|3 | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a Spb1 D52A suppressor 3 strain | ELECTRON MICROSCOPY | 2.36 | 120 |
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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