Equivalence class NR_4.0_69813.10 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7EQJ|1|B (rep) | Transfer RNA | RNA (76-MER) | Escherichia coli | Bacteria | RF00005 | crystal structure of E. coli Valine tRNA | X-ray diffraction | 2.043 | 2022-01-19 |
| 2 | 7EQJ|1|A | Transfer RNA | RNA (76-MER) | Escherichia coli | Bacteria | RF00005 | crystal structure of E. coli Valine tRNA | X-ray diffraction | 2.043 | 2022-01-19 |
| 3 | 6OF1|1|1w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-ray diffraction | 2.8 | 2019-04-17 |
| 4 | 5IBB|1|1K | Transfer RNA | tRNAVal, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-ray diffraction | 2.96 | 2016-05-25 |
| 5 | 6CAE|1|1y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-ray diffraction | 2.6 | 2018-04-18 |
| 6 | 6O97|1|1w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-ray diffraction | 2.75 | 2019-04-17 |
| 7 | 6OF1|1|1y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-ray diffraction | 2.8 | 2019-04-17 |
| 8 | 6BY1|1|AW | Transfer RNA | Valine-specific transfer RNA, Messenger RNA | Escherichia coli | Bacteria | RF00005 | E. coli pH03H9 complex | X-ray diffraction | 3.94 | 2019-02-27 |
| 9 | 6OF1|1|2w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-ray diffraction | 2.8 | 2019-04-17 |
| 10 | 6O97|1|1y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-ray diffraction | 2.75 | 2019-04-17 |
| 11 | 6ND6|1|1y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-ray diffraction | 2.85 | 2019-02-20 |
| 12 | 6BY1|1|BW | Transfer RNA | Valine-specific transfer RNA, Messenger RNA | Escherichia coli | Bacteria | RF00005 | E. coli pH03H9 complex | X-ray diffraction | 3.94 | 2019-02-27 |
| 13 | 5IBB|1|3L | Transfer RNA | tRNAVal | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-ray diffraction | 2.96 | 2016-05-25 |
| 14 | 6CAE|1|1w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-ray diffraction | 2.6 | 2018-04-18 |
| 15 | 6BY1|1|BV | Transfer RNA | Valine-specific transfer RNA, Messenger RNA | Escherichia coli | Bacteria | RF00005 | E. coli pH03H9 complex | X-ray diffraction | 3.94 | 2019-02-27 |
| 16 | 6BY1|1|AV | Transfer RNA | Valine-specific transfer RNA, Messenger RNA | Escherichia coli | Bacteria | RF00005 | E. coli pH03H9 complex | X-ray diffraction | 3.94 | 2019-02-27 |
| 17 | 6OF1|1|2y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-ray diffraction | 2.8 | 2019-04-17 |
| 18 | 6CAE|1|2y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-ray diffraction | 2.6 | 2018-04-18 |
| 19 | 6ND6|1|1w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-ray diffraction | 2.85 | 2019-02-20 |
| 20 | 6CAE|1|2w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-ray diffraction | 2.6 | 2018-04-18 |
| 21 | 6O97|1|2y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-ray diffraction | 2.75 | 2019-04-17 |
| 22 | 5IBB|1|3K | Transfer RNA | tRNAVal | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-ray diffraction | 2.96 | 2016-05-25 |
| 23 | 6ND6|1|2y | Transfer RNA | A-site and E-site tRNAs | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-ray diffraction | 2.85 | 2019-02-20 |
| 24 | 6O97|1|2w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-ray diffraction | 2.75 | 2019-04-17 |
| 25 | 6ND6|1|2w | Transfer RNA | A-site and E-site tRNAs, mRNA | Escherichia coli | Bacteria | RF00005 | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-ray diffraction | 2.85 | 2019-02-20 |
| 26 | 6N1D|1|BPTN | Transfer RNA | P-tRNA | Escherichia coli | Bacteria | RF00005 | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-ray diffraction | 3.2 | 2019-04-03 |
| 27 | 6N1D|1|APTN | Transfer RNA | P-tRNA, mRNA | Escherichia coli | Bacteria | RF00005 | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-ray diffraction | 3.2 | 2019-04-03 |
| 28 | 6BY1|1|AY | Transfer RNA | Valine-specific transfer RNA, Messenger RNA | Escherichia coli | Bacteria | RF00005 | E. coli pH03H9 complex | X-ray diffraction | 3.94 | 2019-02-27 |
| 29 | 7K00|1|Y | Transfer RNA | A-site tRNA-val, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of the Bacterial Ribosome at 2 Angstrom Resolution | Electron microscopy | 1.98 | 2020-09-23 |
| 30 | 7B5K|1|9 | Transfer RNA | E-site val tRNA (76-MER) | Escherichia coli K-12 | Bacteria | RF00005 | E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain. | Electron microscopy | 2.9 | 2021-05-26 |
Release history
| Release | 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 | 3.230 | 3.231 | 3.232 | 3.233 | 3.234 | 3.235 | 3.236 | 3.237 | 3.238 | 3.239 | 3.240 | 3.241 | 3.242 | 3.243 | 3.244 | 3.245 | 3.246 | 3.247 | 3.248 | 3.249 | 3.250 | 3.251 | 3.252 | 3.253 | 3.254 | 3.255 | 3.256 | 3.257 | 3.258 | 3.259 | 3.260 | 3.261 | 3.262 | 3.263 | 3.264 | 3.265 | 3.266 | 3.267 | 3.268 | 3.269 | 3.270 | 3.271 | 3.272 | 3.273 | 3.274 | 3.275 | 3.276 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 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 | 2022-05-11 | 2022-05-18 | 2022-05-25 | 2022-06-01 | 2022-06-08 | 2022-06-15 | 2022-06-22 | 2022-06-29 | 2022-07-06 | 2022-07-13 | 2022-07-20 | 2022-07-27 | 2022-08-03 | 2022-08-10 | 2022-08-17 | 2022-08-24 | 2022-08-31 | 2022-09-07 | 2022-09-14 | 2022-09-21 | 2022-09-28 | 2022-10-05 | 2022-10-12 | 2022-10-19 | 2022-10-26 | 2022-11-02 | 2022-11-09 | 2022-11-16 | 2022-11-23 | 2022-11-30 | 2022-12-07 | 2022-12-14 | 2022-12-21 | 2022-12-28 | 2023-01-04 | 2023-01-11 | 2023-01-18 | 2023-01-25 | 2023-02-01 | 2023-02-08 | 2023-02-15 | 2023-02-22 | 2023-03-01 | 2023-03-08 | 2023-03-15 | 2023-03-22 | 2023-03-29 | 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 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_69813.10 | NR_4.0_69813.9 | 3.214 | (28) 6O97|1|1w, 5IBB|1|3L, 6ND6|1|2y, 5IBB|1|3K, 6ND6|1|2w, 5IBB|1|1K, 6ND6|1|1y, 6ND6|1|1w, 6N1D|1|BPTN, 6N1D|1|APTN, 6CAE|1|2y, 7K00|1|Y, 6CAE|1|2w, 7B5K|1|9, 6CAE|1|1y, 6OF1|1|2y, 6CAE|1|1w, 6OF1|1|2w, 6BY1|1|BW, 6OF1|1|1y, 6BY1|1|BV, 6OF1|1|1w, 6BY1|1|AY, 6O97|1|2y, 6O97|1|2w, 6BY1|1|AW, 6O97|1|1y, 6BY1|1|AV | (2) 7EQJ|1|A, 7EQJ|1|B | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_69813.10 | NR_4.0_69813.11 | 3.311 | (30) 5IBB|1|1K, 6ND6|1|2w, 6ND6|1|2y, 6O97|1|1w, 6O97|1|1y, 6O97|1|2w, 6O97|1|2y, 6OF1|1|1w, 6OF1|1|1y, 6OF1|1|2w, 6OF1|1|2y, 7B5K|1|9, 7EQJ|1|A, 7EQJ|1|B, 6ND6|1|1y, 6ND6|1|1w, 5IBB|1|3K, 5IBB|1|3L, 6BY1|1|AV, 6BY1|1|AW, 6BY1|1|AY, 6BY1|1|BV, 6BY1|1|BW, 6CAE|1|1w, 6CAE|1|1y, 6CAE|1|2w, 6CAE|1|2y, 6N1D|1|APTN, 6N1D|1|BPTN, 7K00|1|Y | (0) | (0) |
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 | 5IBB|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-RAY DIFFRACTION | 2.96 | 67 |
| 2 | 7K00|1|Y | Structure of the Bacterial Ribosome at 2 Angstrom Resolution | ELECTRON MICROSCOPY | 1.98 | 74 |
| 3 | 6ND6|1|2w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-RAY DIFFRACTION | 2.85 | 67 |
| 4 | 6O97|1|2w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-RAY DIFFRACTION | 2.75 | 67 |
| 5 | 6OF1|1|2w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-RAY DIFFRACTION | 2.8 | 67 |
| 6 | 6CAE|1|2w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-RAY DIFFRACTION | 2.6 | 67 |
| 7 | 6CAE|1|1w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-RAY DIFFRACTION | 2.6 | 67 |
| 8 | 6ND6|1|1w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-RAY DIFFRACTION | 2.85 | 67 |
| 9 | 6OF1|1|1w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-RAY DIFFRACTION | 2.8 | 67 |
| 10 | 6O97|1|1w | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-RAY DIFFRACTION | 2.75 | 67 |
| 11 | 6BY1|1|AV | E. coli pH03H9 complex | X-RAY DIFFRACTION | 3.94 | 76 |
| 12 | 6BY1|1|BV | E. coli pH03H9 complex | X-RAY DIFFRACTION | 3.94 | 76 |
| 13 | 6BY1|1|BW | E. coli pH03H9 complex | X-RAY DIFFRACTION | 3.94 | 76 |
| 14 | 6BY1|1|AW | E. coli pH03H9 complex | X-RAY DIFFRACTION | 3.94 | 76 |
| 15 | 6BY1|1|AY | E. coli pH03H9 complex | X-RAY DIFFRACTION | 3.94 | 76 |
| 16 | 6OF1|1|2y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-RAY DIFFRACTION | 2.8 | 67 |
| 17 | 6CAE|1|2y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-RAY DIFFRACTION | 2.6 | 67 |
| 18 | 6ND6|1|2y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-RAY DIFFRACTION | 2.85 | 67 |
| 19 | 6O97|1|2y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-RAY DIFFRACTION | 2.75 | 67 |
| 20 | 6O97|1|1y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution | X-RAY DIFFRACTION | 2.75 | 67 |
| 21 | 6CAE|1|1y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | X-RAY DIFFRACTION | 2.6 | 68 |
| 22 | 6OF1|1|1y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution | X-RAY DIFFRACTION | 2.8 | 67 |
| 23 | 6ND6|1|1y | Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution | X-RAY DIFFRACTION | 2.85 | 68 |
| 24 | 7EQJ|1|B | crystal structure of E. coli Valine tRNA | X-RAY DIFFRACTION | 2.043 | 75 |
| 25 | 7EQJ|1|A | crystal structure of E. coli Valine tRNA | X-RAY DIFFRACTION | 2.043 | 76 |
| 26 | 5IBB|1|3K | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-RAY DIFFRACTION | 2.96 | 70 |
| 27 | 5IBB|1|3L | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site | X-RAY DIFFRACTION | 2.96 | 71 |
| 28 | 6N1D|1|APTN | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-RAY DIFFRACTION | 3.2 | 70 |
| 29 | 6N1D|1|BPTN | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-RAY DIFFRACTION | 3.2 | 70 |
| 30 | 7B5K|1|9 | E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain. | ELECTRON MICROSCOPY | 2.9 | 76 |