Equivalence class NR_4.0_69813.9 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6OF1|1|1w (rep) | 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 |
| 2 | 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 |
| 3 | 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 |
| 4 | 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 |
| 5 | 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 |
| 6 | 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 |
| 7 | 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 |
| 8 | 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 |
| 9 | 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 |
| 10 | 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 |
| 11 | 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 |
| 12 | 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 |
| 13 | 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 |
| 14 | 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 |
| 15 | 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 |
| 16 | 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 |
| 17 | 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 |
| 18 | 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 |
| 19 | 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 |
| 20 | 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 |
| 21 | 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 |
| 22 | 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 |
| 23 | 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 |
| 24 | 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 |
| 25 | 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 |
| 26 | 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 |
| 27 | 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 |
| 28 | 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 | 3.180 | 3.181 | 3.182 | 3.183 | 3.184 | 3.185 | 3.186 | 3.187 | 3.188 | 3.189 | 3.190 | 3.191 | 3.192 | 3.193 | 3.194 | 3.195 | 3.196 | 3.197 | 3.198 | 3.199 | 3.200 | 3.201 | 3.202 | 3.203 | 3.204 | 3.205 | 3.206 | 3.207 | 3.208 | 3.209 | 3.210 | 3.211 | 3.212 | 3.213 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2021-05-26 | 2021-06-02 | 2021-06-09 | 2021-06-16 | 2021-06-23 | 2021-06-30 | 2021-07-07 | 2021-07-14 | 2021-07-21 | 2021-07-28 | 2021-08-04 | 2021-08-11 | 2021-08-18 | 2021-08-25 | 2021-09-01 | 2021-09-08 | 2021-09-15 | 2021-09-22 | 2021-09-29 | 2021-10-06 | 2021-10-13 | 2021-10-20 | 2021-10-27 | 2021-11-03 | 2021-11-10 | 2021-11-17 | 2021-11-24 | 2021-12-01 | 2021-12-08 | 2021-12-15 | 2021-12-22 | 2021-12-29 | 2022-01-05 | 2022-01-12 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_69813.9 | NR_4.0_69813.8 | 3.180 | (27) 6O97|1|1w, 6ND6|1|2y, 6ND6|1|2w, 6ND6|1|1y, 6ND6|1|1w, 6N1D|1|BPTN, 6N1D|1|APTN, 6CAE|1|2y, 6CAE|1|2w, 6CAE|1|1y, 6CAE|1|1w, 6BY1|1|BW, 6BY1|1|BV, 6BY1|1|AY, 6BY1|1|AW, 6BY1|1|AV, 5IBB|1|3L, 5IBB|1|3K, 5IBB|1|1K, 7K00|1|Y, 6OF1|1|2y, 6OF1|1|2w, 6OF1|1|1y, 6OF1|1|1w, 6O97|1|2y, 6O97|1|2w, 6O97|1|1y | (1) 7B5K|1|9 | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_69813.9 | NR_4.0_69813.10 | 3.214 | (28) 6ND6|1|1w, 6OF1|1|1w, 6BY1|1|BV, 6N1D|1|BPTN, 6O97|1|2y, 6BY1|1|AY, 6N1D|1|APTN, 6O97|1|2w, 6BY1|1|AW, 6O97|1|1y, 7K00|1|Y, 6BY1|1|AV, 6CAE|1|2y, 6O97|1|1w, 7B5K|1|9, 5IBB|1|3L, 6CAE|1|2w, 6ND6|1|2y, 6OF1|1|2y, 5IBB|1|3K, 6CAE|1|1y, 6ND6|1|2w, 6OF1|1|2w, 5IBB|1|1K, 6CAE|1|1w, 6ND6|1|1y, 6OF1|1|1y, 6BY1|1|BW | (0) | (2) 7EQJ|1|A, 7EQJ|1|B |
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 | 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 |
| 6 | 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 |
| 7 | 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 |
| 8 | 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 |
| 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 | 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 |
| 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 | 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 |
| 25 | 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 |
| 26 | 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 |
| 27 | 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 |
| 28 | 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 |