Equivalence class NR_3.0_90506.47 Obsolete
| # | IFE | Compound(s) | RNA source organism | Title | Method | Resolution | Date |
|---|---|---|---|---|---|---|---|
| 1 | 5TBW|1|1+ 5TBW|1|4 (rep) | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of chlorolissoclimide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2017-07-26 |
| 2 | 5TBW|1|AR+ 5TBW|1|AT | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of chlorolissoclimide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2017-07-26 |
| 3 | 4V88|1|A5+ 4V88|1|A8 | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 2014-07-09 |
| 4 | 4V88|1|A1+ 4V88|1|A4 | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 2014-07-09 |
| 5 | 7OSA|1|25S+ 7OSA|1|58S | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Pre-translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands | X-RAY DIFFRACTION | 3 | 2021-12-08 |
| 6 | 7OSM|1|25S+ 7OSM|1|58S | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Intermediate translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands | X-RAY DIFFRACTION | 3 | 2021-12-08 |
| 7 | 6T4Q|1|C1+ 6T4Q|1|C3 | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Structure of yeast 80S ribosome stalled on the CGA-CCG inhibitory codon combination. | ELECTRON MICROSCOPY | 2.6 | 2019-12-25 |
| 8 | 6WOO|1|5+ 6WOO|1|8 | 25S ribosomal RNA, 5.8S ribosomal rRNA | Saccharomyces cerevisiae | CryoEM structure of yeast 80S ribosome with Met-tRNAiMet, eIF5B, and GDP | ELECTRON MICROSCOPY | 2.9 | 2020-09-23 |
| 9 | 6TB3|1|BQ+ 6TB3|1|BS | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex | ELECTRON MICROSCOPY | 2.8 | 2020-04-22 |
| 10 | 6SNT|1|1+ 6SNT|1|3 | Saccharomyces cerevisiae S288C 25S ribosomal RNA (RDN25-1), rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Yeast 80S ribosome stalled on SDD1 mRNA. | ELECTRON MICROSCOPY | 2.8 | 2020-03-04 |
| 11 | 7AZY|1|E+ 7AZY|1|G | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae S288C | Context-specific inhibition of eukaryotic translation by macrolide antibiotics | ELECTRON MICROSCOPY | 2.877 | 2021-05-19 |
| 12 | 4U4R|1|1+ 4U4R|1|4 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 2014-10-22 |
| 13 | 4U4R|1|5+ 4U4R|1|8 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 2014-10-22 |
| 14 | 4U3U|1|5+ 4U3U|1|8 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 2014-10-22 |
| 15 | 4U3U|1|1+ 4U3U|1|4 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 2014-10-22 |
| 16 | 4U3M|1|1+ 4U3M|1|4 | 25s rRNA, 5.8s rRNA | Saccharomyces cerevisiae | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 17 | 6YLG|1|1+ 6YLG|1|2 | 25S rRNA, 5.8S rRNA | Saccharomyces cerevisiae | Rix1-Rea1 pre-60S particle - 60S core, body 1 (rigid body refinement) | ELECTRON MICROSCOPY | 3 | 2020-07-29 |
| 18 | 4U4Q|1|5+ 4U4Q|1|8 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 19 | 4U3M|1|5+ 4U3M|1|8 | 25s rRNA, 5.8s rRNA | Saccharomyces cerevisiae | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 20 | 4U4U|1|1+ 4U4U|1|4 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 21 | 4U4Q|1|1+ 4U4Q|1|4 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 22 | 4U4U|1|5+ 4U4U|1|8 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 23 | 4U52|1|5+ 4U52|1|8 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
| 24 | 4U52|1|1+ 4U52|1|4 | 25S ribosomal RNA, 5.8S ribosomal RNA | Saccharomyces cerevisiae | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 2014-10-22 |
Release history
| Release | 3.208 | 3.209 | 3.210 | 3.211 | 3.212 | 3.213 | 3.214 | 3.215 | 3.216 | 3.217 | 3.218 | 3.219 | 3.220 | 3.221 | 3.222 | 3.223 | 3.224 | 3.225 | 3.226 | 3.227 | 3.228 | 3.229 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2021-12-08 | 2021-12-15 | 2021-12-22 | 2021-12-29 | 2022-01-05 | 2022-01-12 | 2022-01-19 | 2022-01-26 | 2022-02-02 | 2022-02-09 | 2022-02-16 | 2022-02-23 | 2022-03-02 | 2022-03-09 | 2022-03-16 | 2022-03-23 | 2022-03-30 | 2022-04-06 | 2022-04-13 | 2022-04-20 | 2022-04-27 | 2022-05-04 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.0_90506.47 | NR_3.0_90506.46 | 3.208 | (22) 4V88|1|A5+4V88|1|A8, 4V88|1|A1+4V88|1|A4, 4U52|1|5+4U52|1|8, 4U52|1|1+4U52|1|4, 4U4U|1|5+4U4U|1|8, 4U4U|1|1+4U4U|1|4, 4U4R|1|5+4U4R|1|8, 4U4R|1|1+4U4R|1|4, 4U4Q|1|5+4U4Q|1|8, 7AZY|1|E+7AZY|1|G, 4U4Q|1|1+4U4Q|1|4, 6YLG|1|1+6YLG|1|2, 4U3U|1|5+4U3U|1|8, 6WOO|1|5+6WOO|1|8, 4U3U|1|1+4U3U|1|4, 6TB3|1|BQ+6TB3|1|BS, 4U3M|1|5+4U3M|1|8, 6T4Q|1|C1+6T4Q|1|C3, 4U3M|1|1+4U3M|1|4, 6SNT|1|1+6SNT|1|3, 5TBW|1|AR+5TBW|1|AT, 5TBW|1|1+5TBW|1|4 | (2) 7OSA|1|25S+7OSA|1|58S, 7OSM|1|25S+7OSM|1|58S | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.0_90506.47 | NR_3.0_90506.48 | 3.230 | (24) 7AZY|1|E+7AZY|1|G, 4U4Q|1|5+4U4Q|1|8, 6YLG|1|1+6YLG|1|2, 4U4Q|1|1+4U4Q|1|4, 6WOO|1|5+6WOO|1|8, 4U3U|1|5+4U3U|1|8, 6TB3|1|BQ+6TB3|1|BS, 4U3U|1|1+4U3U|1|4, 6T4Q|1|C1+6T4Q|1|C3, 4U3M|1|5+4U3M|1|8, 6SNT|1|1+6SNT|1|3, 4U3M|1|1+4U3M|1|4, 5TBW|1|AR+5TBW|1|AT, 5TBW|1|1+5TBW|1|4, 4V88|1|A5+4V88|1|A8, 4V88|1|A1+4V88|1|A4, 4U52|1|5+4U52|1|8, 4U52|1|1+4U52|1|4, 4U4U|1|5+4U4U|1|8, 4U4U|1|1+4U4U|1|4, 7OSM|1|25S+7OSM|1|58S, 4U4R|1|5+4U4R|1|8, 7OSA|1|25S+7OSA|1|58S, 4U4R|1|1+4U4R|1|4 | (0) | (1) 7MPJ|1|A1+7MPJ|1|A4 |
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 | 6WOO|1|5+6WOO|1|8 | CryoEM structure of yeast 80S ribosome with Met-tRNAiMet, eIF5B, and GDP | ELECTRON MICROSCOPY | 2.9 | 3271 |
| 2 | 4U52|1|5+4U52|1|8 | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 |
| 3 | 4U4Q|1|5+4U4Q|1|8 | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 |
| 4 | 4U4U|1|5+4U4U|1|8 | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 |
| 5 | 4U3M|1|5+4U3M|1|8 | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3150 |
| 6 | 4U3U|1|5+4U3U|1|8 | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 3150 |
| 7 | 4U4R|1|5+4U4R|1|8 | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 3150 |
| 8 | 4V88|1|A5+4V88|1|A8 | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 3150 |
| 9 | 5TBW|1|AR+5TBW|1|AT | Crystal structure of chlorolissoclimide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 10 | 5TBW|1|1+5TBW|1|4 | Crystal structure of chlorolissoclimide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 11 | 4U3M|1|1+4U3M|1|4 | Crystal structure of Anisomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 12 | 4U3U|1|1+4U3U|1|4 | Crystal structure of Cycloheximide bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.9 | 3149 |
| 13 | 4U4R|1|1+4U4R|1|4 | Crystal structure of Lactimidomycin bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 2.8 | 3149 |
| 14 | 4V88|1|A1+4V88|1|A4 | The structure of the eukaryotic ribosome at 3.0 A resolution. | X-RAY DIFFRACTION | 3 | 3149 |
| 15 | 4U4Q|1|1+4U4Q|1|4 | Crystal structure of Homoharringtonine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 16 | 4U4U|1|1+4U4U|1|4 | Crystal structure of Lycorine bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 17 | 4U52|1|1+4U52|1|4 | Crystal structure of Nagilactone C bound to the yeast 80S ribosome | X-RAY DIFFRACTION | 3 | 3149 |
| 18 | 6TB3|1|BQ+6TB3|1|BS | yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex | ELECTRON MICROSCOPY | 2.8 | 3223 |
| 19 | 6SNT|1|1+6SNT|1|3 | Yeast 80S ribosome stalled on SDD1 mRNA. | ELECTRON MICROSCOPY | 2.8 | 3184 |
| 20 | 6T4Q|1|C1+6T4Q|1|C3 | Structure of yeast 80S ribosome stalled on the CGA-CCG inhibitory codon combination. | ELECTRON MICROSCOPY | 2.6 | 3184 |
| 21 | 7AZY|1|E+7AZY|1|G | Context-specific inhibition of eukaryotic translation by macrolide antibiotics | ELECTRON MICROSCOPY | 2.877 | 3161 |
| 22 | 7OSA|1|25S+7OSA|1|58S | Pre-translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands | X-RAY DIFFRACTION | 3 | 3180 |
| 23 | 7OSM|1|25S+7OSM|1|58S | Intermediate translocation complex of 80 S.cerevisiae ribosome with eEF2 and ligands | X-RAY DIFFRACTION | 3 | 3162 |
| 24 | 6YLG|1|1+6YLG|1|2 | Rix1-Rea1 pre-60S particle - 60S core, body 1 (rigid body refinement) | ELECTRON MICROSCOPY | 3 | 3039 |